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ORCIDJournal of Open Source Software, Volume 9
Volume 9, Number 93, January 2024
- Ritam Raha
, Rajarshi Roy, Nathanaël Fijalkow, Daniel Neider:
Scarlet: Scalable Anytime Algorithms for Learning Fragments of Linear Temporal Logic. 5052 - Tuomas Eerola, Martin Clayton:
onsetsync: An R Package for Onset Synchrony Analysis. 5395 - Quentin Batista, Chase Coleman, Yuya Furusawa, Shu Hu, Smit Lunagariya, Spencer Lyon, Matthew McKay, Daisuke Oyama, Thomas J. Sargent, Zejin Shi, John Stachurski, Pablo Winant, Natasha Watkins, Ziyue Yang, Hengcheng Zhang:
QuantEcon.py: A community based Python library for quantitative economics. 5585 - Jessica Otis, James Safley, Megan Brett, Lincoln Mullen:
DataScribe: An Omeka S module for structured data transcription. 5661 - Maria Gargiulo, María J. Durán, Paula Andrea Amado, Patrick Ball:
verdata: An R package for analyzing data from the Truth Commission in Colombia. 5844 - Pablo Timoner, Fleur Hierink, Loïc Baecher, Caroline Fuhrer, Nicolas Ray:
inAccessMod: An R package to automate data downloading and processing for AccessMod. 5879 - Vivek Joshy:
OpenSkill: A faster asymmetric multi-team, multiplayer rating system. 5901 - Guilherme P. Castelão, Luiz Irber:
Gibbs Sea Water Oceanographic Toolbox of TEOS-10 implemented in Rust. 5988 - Andrew S. Rosen, Max C. Gallant, Janine George, Janosh Riebesell, Hrushikesh Sahasrabuddhe, Jimmy-Xuan Shen, Mingjian Wen, Matthew L. Evans, Guido Petretto, David Waroquiers, Gian-Marco Rignanese, Kristin A. Persson, Anubhav Jain, Alex M. Ganose:
Jobflow: Computational Workflows Made Simple. 5995 - Matthew Kuperus Heun, Zeke Marshall, Emmanuel Aramendia:
CLPFUDatabase: A suite of R packages for energy conversion chain analysis. 6057 - Niclas Rieger, Samuel J. Levang:
xeofs: Comprehensive EOF analysis in Python with xarray. 6060 - Matthias Mayr, Julian M. Salt Ducaju:
A C++ Implementation of a Cartesian Impedance Controller for Robotic Manipulators. 5194 - K. J. Schmidt, Aristana Scourtas, Logan T. Ward, Steve Wangen, Marcus Schwarting, Isaac Darling, Ethan Truelove, Aadit Ambadkar, Ribhav Bose, Zoa Katok, Jingrui Wei, Xiangguo Li, Ryan Jacobs, Lane Schultz, Doyeon Kim, Michael C. Ferris, Paul M. Voyles, Dane Morgan, Ian T. Foster, Ben Blaiszik:
Foundry-ML - Software and Services to Simplify Access to Machine Learning Datasets in Materials Science. 5467 - Lisa Buchauer, Shalev Itzkovitz:
cellanneal: A user-friendly deconvolution software for transcriptomics data. 5610 - Ian Hunt-Isaak, John Russell, Doeke Hekstra:
mpl-interactions: A Python Package for Interactive Matplotlib Figures. 5651 - Petr Grigorev, Lucas Frérot, Fraser Birks, Adrien Gola, Jacek Golebiowski, Jan Grießer, Johannes L. Hörmann, Andreas Klemenz, Gianpietro Moras, Wolfram G. Nöhring, Jonas A. Oldenstaedt, Punit Patel, Thomas Reichenbach, Thomas Rocke, Lakshmi Shenoy, Michael Walter, Simon Wengert, Lei Zhang, James R. Kermode, Lars Pastewka:
matscipy: materials science at the atomic scale with Python. 5668 - Thomas R. Else, Janek Gröhl, Lina Hacker, Sarah E. Bohndiek:
PATATO: a Python photoacoustic tomography analysis toolkit. 5686
Volume 9, Number 94, February 2024
- Peerasait Prachaseree, Saeed Mohammadzadeh, Berkin Dortdivanlioglu, Emma Lejeune:
FEniCS-arclength: A numerical continuation package in FEniCS for nonlinear problems in solid mechanics. 5727 - Marc Hirschvogel:
Ambit - A FEniCS-based cardiovascular multi-physics solver. 5744 - Pietro Sperotto, M. Ratz, Miguel A. Mendez:
SPICY: a Python toolbox for meshless assimilation from image velocimetry using radial basis functions. 5749 - Baptiste Delaporte, Thomas Arsouze, Gunnar Keppel, Swen Jullien, Christophe Menkes, Thomas Ibanez:
StormR: An R package to quantify and map the tropical storms and cyclones' winds characteristics. 5766 - David Malaspina, Jordi Faraudo:
Chitin Builder: a VMD tool for the generation of structures of chitin molecular crystals for atomistic simulations. 5771 - Coy J. Zimmermann, Keith B. Neeves, David W. M. Marr:
MicroTracker.jl: A Julia package for microbot research. 5804 - Alejandro José Uría-Álvarez, Juan José Palacios:
tightbinder: A Python package for semi-empirical tight-binding models of crystalline and disordered solids. 5810 - Johanna Casado, Gonzalo de la Vega, Beatriz García:
SonoUno development: a User-Centered Sonification software for data analysis. 5819 - Ziheng 'Leo' Li, Haowen 'John' Wei, Ziwen Xie, Yunxiang Peng, June Pyo Suh, Steven Feiner, Paul Sajda:
PhysioLabXR: A Python Platform for Real-Time, Multi-modal, Brain-Computer Interfaces and Extended Reality Experiments. 5854 - Nicodemo Di Pasquale, Ruslan L. Davidchack, Lorenzo Rovigatti:
CLEAVING: a LAMMPS package to compute surface free energies. 5886 - Julian Müller:
netroles: A Java library for role equivalence analysis in networks. 5903 - David Augustin:
Chi: A Python package for treatment response modelling. 5925 - Jimmy-Xuan Shen, Joel Varley:
pymatgen-analysis-defects: A Python package for analyzing point defects in crystalline materials. 5941 - Kleydson Stenio, Débora Marcondes Bastos Pereira Milori:
LIBSsa: an open source software for analyzing LIBS spectra. 5961 - Victor Alves, San Dinh, John R. Kitchin, Vitor Gazzaneo, Juan C. Carrasco, Fernando V. Lima:
Opyrability: A Python package for process operability analysis. 5966 - George Bouras, Susanna R. Grigson, Bhavya Nalagampalli Papudeshi, Vijini Mallawaarachchi, Michael J. Roach:
Dnaapler: A tool to reorient circular microbial genomes. 5968 - Clémence Réda, Jill-Jênn Vie, Olaf Wolkenhauer:
stanscofi and benchscofi: a new standard for drug repurposing by collaborative filtering. 5973 - Bonan Zhu, Seán R. Kavanagh, David O. Scanlon:
easyunfold: A Python package for unfolding electronic band structures. 5974 - Reid A. Johnson:
quantile-forest: A Python Package for Quantile Regression Forests. 5976 - Daniel Lerch-Hostalot, David Megías:
Aletheia: an open-source toolbox for steganalysis. 5982 - Brendan Collins, Ryan Beams, Miguel A. Lago:
Open-Source Pattern Creation Tool for Medical Extended Reality Image Quality Assessment. 6021 - Junta Tagusari:
H-RISK with NoiseModelling: a QGIS plugin to predict environmental noise and estimate health risks. 6023 - Jean-Baptiste Féret, Florian de Boissieu:
prospect: an R package to link leaf optical properties with their chemical and structural properties with the leaf model PROSPECT. 6027 - Lee S. Katz, John Phan, Henk C. den Bakker:
Fasten: a toolkit for streaming operations on fastq files. 6030 - Taha Zerrouki:
Tashaphyne: A Python package for Arabic Light Stemming. 6063 - Akihiro Kuno:
cstag and cstag-cli: tools for manipulating and visualizing cs tags. 6066 - Vikram Ramavarapu, Fabio Jose Ayres, Minhyuk Park, Vidya Kamath Pailodi, João Alfredo Cardoso Lamy, Tandy J. Warnow, George Chacko:
CM++ - A Meta-method for Well-Connected Community Detection. 6073 - Jake Langham, Mark J. Woodhouse:
The Kestrel software for simulations of morphodynamic Earth-surface flows. 6079 - Robrecht Cannoodt, Hendrik Cannoodt, Dries Schaumont, Kai Waldrant, Eric Van de Kerckhove, Andy Boschmans, Dries De Maeyer, Toni Verbeiren:
Viash: A meta-framework for building reusable workflow modules. 6089 - Yann Georg Büchau, Hasan Mashni, Matteo Bramati, Vasileios Savvakis, Ines Schäfer, Saskia Jung, Gabriela Miranda-Garcia, Daniel Hardt, Jens Bange:
PARMESAN: Meteorological Timeseries and Turbulence Analysis Backed by Symbolic Mathematics. 6127 - Florian Knoop, Nina Shulumba, Aloïs Castellano, J. P. Alvarinhas Batista, Roberta Farris, Matthieu J. Verstraete, Matthew Heine, David Broido, Dennis S. Kim, Johan Klarbring, Igor A. Abrikosov, Sergei I. Simak, Olle Hellman:
TDEP: Temperature Dependent Effective Potentials. 6150 - Mark W. Isken, Jacob W. Norman:
hillmaker: A Python package for occupancy analysis in discrete entity flow systems. 6154 - David Frank, Jonas Jelten, Tobias Lasser:
elsa: an elegant framework for tomographic reconstruction. 6174 - Max Weiner, Christoph Renzing, Max Stirl, Matthias Schmidtchen, Ulrich Prahl:
PyRolL - An Extensible OpenSource Framework for Rolling Simulation. 6200 - Joel H. Nitta, Wataru Iwasaki:
dwctaxon, an R package for editing and validating taxonomic data in Darwin Core format. 6215 - Mohamed Masoud, David A. Gutman, Sergey M. Plis:
HistoJS: Web-Based Analytical Tool for Advancing Multiplexed Images. 6317 - He Zhang:
cppTPSA/pyTPSA: a C++/Python package for truncated power series algebra. 4818 - Patrick N. Raanes, Yumeng Chen, Colin Grudzien:
DAPPER: Data Assimilation with Python: a Package for Experimental Research. 5150
Volume 9, Number 95, March 2024
- Enrico Ubaldi, Takahiro Yabe, Nicholas K. W. Jones, Maham Faisal Khan, Alessandra Feliciotti, Riccardo Di Clemente, Satish V. Ukkusuri, Emanuele Strano:
Mobilkit: A Python Toolkit for Urban Resilience and Disaster Risk Management Analytics. 5201 - Nicolas Richart, Guillaume Anciaux, Emil R. Gallyamov, Lucas Frérot, David S. Kammer, Mohit Pundir, Marco Vocialta, Aurelia Isabel Cuba Ramos, Mauro Corrado, Philip Müller, Fabian Barras, Shenghan Zhang, Roxane Ferry, Shad Durussel, Jean-François Molinari:
Akantu: an HPC finite-element library for contact and dynamic fracture simulations. 5253
Volume 9, Number 96, April 2024
- Reed Nelson, Rosa Aghdam, Claudia R. Solís-Lemus:
MiNAA: Microbiome Network Alignment Algorithm. 5448 - Arianna I. Renzini, Alba Romero-Rodriguez, Colm Talbot, Max Lalleman, Shivaraj Kandhasamy, Kevin Turbang, Sylvia Biscoveanu, Katarina Martinovic, Patrick M. Meyers, Leo Tsukada, Kamiel Janssens, Derek Davis, Andrew Matas, Philip Charlton, Guo-chin Liu, Irina Dvorkin:
pygwb: a Python-based library for gravitational-wave background searches. 5454 - Naeem Khoshnevis, Boyu Ren, Danielle Braun:
GPCERF - An R package for implementing Gaussian processes for estimating causal exposure response curves. 5465 - David J. McKenna, Evan F. Keane, Peter T. Gallagher, Joe McCauley:
udpPacketManager: An International LOFAR Station Data (Pre-)Processor. 5517 - Fabian Plum:
OmniTrax: A deep learning-driven multi-animal tracking and pose-estimation add-on for Blender. 5549 - Mats W. J. van Es, Eelke Spaak, Jan-Mathijs Schoffelen, Robert Oostenveld:
Reducing the efforts to create reproducible analysis code with FieldTrip. 5566 - Alexander T. Bradley, Robert J. Arthern, David T. Bett, C. Rosie Williams, James Byrne:
WAVI.jl: Ice Sheet Modelling in Julia. 5584 - Benjamin Lansdell, Abbas Shirinifard:
Ethome: tools for machine learning of animal behavior. 5623 - Gurjeet Sangra Singh, Luigi Acerbi:
PyBADS: Fast and robust black-box optimization in Python. 5694 - Carsten Lemmen, Sascha Hokamp, Serra Örey, Jürgen Scheffran:
Viable North Sea (ViNoS): A NetLogo Agent-based Model of German Small-scale Fisheries. 5731 - Luc van Vught, Corné Haasjes, Jan-Willem M. Beenakker:
ZOSPy: optical ray tracing in Python through OpticStudio. 5756 - Pierluigi Crescenzi, Emanuele Natale, Aurora Rossi, Paulo Bruno S. Serafim:
WorldDynamics.jl: A Julia Package for Developing and Simulating Integrated Assessment Models. 5772 - Sarah Narvaiz, Qinyun Lin, Joshua M. Rosenberg, Kenneth A. Frank, Spiro J. Maroulis, Wei Wang, Ran Xu:
konfound: An R Sensitivity Analysis Package to Quantify the Robustness of Causal Inferences. 5779 - Sadegh Mohammadi:
Pyheartlib: A Python package for processing electrocardiogram signals. 5792 - Jeremy Theler:
FeenoX: a cloud-first finite-element(ish) computational engineering tool. 5846 - Bhavin S. Patel, Peter Hill, Liam Pattinson, Maurizio Giacomin, Arkaprava Bokshi, Daniel Kennedy, Harry G. Dudding, Jason. F. Parisi, Tom F. Neiser, Ajay C. Jayalekshmi, David Dickinson, Juan Ruiz Ruiz:
Pyrokinetics - A Python library to standardise gyrokinetic analysis. 5866 - Patrick Quéméré:
Fitspy: A Python package for spectral decomposition. 5868 - Evert Nasedkin, Paul Mollière, Doriann Blain:
Atmospheric Retrievals with petitRADTRANS. 5875 - Shaowu Pan, Eurika Kaiser, Brian M. de Silva, J. Nathan Kutz, Steven L. Brunton:
PyKoopman: A Python Package for Data-Driven Approximation of the Koopman Operator. 5881 - Indrajeet Haldar:
The plebeian Graph Library: A WebGL based network visualisation and diagnostics package. 5887 - Thomas Vergauwen, Michiel Vieijra, Andrei Covaci, Amber Jacobs, Sara Top, Wout Dewettinck, Kobe Vandelanotte, Ian Hellebosch, Steven Caluwaerts:
MetObs - a Python toolkit for using non-traditional meteorological observations. 5916 - Keneth Garcia-Cifuentes, Rosa L. Becerra, Fabio De Colle:
ClassiPyGRB: Machine Learning-Based Classification and Visualization of Gamma Ray Bursts using t-SNE. 5923 - Akkarapakam Suneesh Jacob, Rituparna Datta:
Automatic Computation for Robot Design (ACRoD): A Python package for numerical calculation of Jacobian of a robot at a given configuration around a specified end-effector point. 5927 - Benjamin A. Steer, Naomi A. Arnold, Cheick Tidiane Ba, Renaud Lambiotte, Haaroon Yousaf, Lucas Jeub, Fabian Murariu, Shivam Kapoor, Pedro Rico, Rachel Chan, Louis Chan, James Alford, Richard G. Clegg, Félix Cuadrado, Matthew Russell Barnes, Peijie Zhong, John Pougué-Biyong, Alhamza Alnaimi:
Raphtory: The temporal graph engine for Rust and Python. 5940 - Stefan Henneking, Socratis Petrides, Federico Fuentes, Jacob C. Badger, Leszek F. Demkowicz:
$hp\mathrm{3D}$: A Scalable MPI/OpenMP $hp$-Adaptive Finite Element Software Library for Complex Multiphysics Applications. 5946 - Josu C. Aurrekoetxea, Jamie Bamber, Sam E. Brady, Katy Clough, Thomas Helfer, James Marsden, Miren Radia, Dina Traykova, Zipeng Wang:
GRDzhadzha: A code for evolving relativistic matter on analytic metric backgrounds. 5956 - Clàudia Rodés-Bachs, Jon Sampedro, Russell Horowitz, Dirk-Jan Van de Ven, Ryna Yiyun Cui, Alicia Zhao, Matthew Zwerling, Zarrar Khan:
gcamreport: An R tool to process and standardize GCAM outputs. 5975 - Giulia Crocioni, Dani L. Bodor, Coos Baakman, Farzaneh M. Parizi, Daniel-T. Rademaker, Gayatri Ramakrishnan, Sven van der Burg, Dario F. Marzella, João M. C. Teixeira, Li C. Xue:
DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning. 5983 - Anselm Hudde:
greeks: Sensitivities of Prices of Financial Options and Implied Volatilities. 5987 - Adam K. Townsend:
Stokesian Dynamics in Python. 6011 - Brenda Praggastis, Sinan Aksoy, Dustin Arendt, Mark Bonicillo, Cliff A. Joslyn, Emilie Purvine, Madelyn Shapiro, Ji Young Yun:
HyperNetX: A Python package for modeling complex network data as hypergraphs. 6016 - Chad A. Greene, Svetlana Erofeeva, Laurie Padman, Susan L. Howard, Tyler Clark Sutterley, Gary D. Egbert:
Tide Model Driver for MATLAB. 6018 - Frederik L. Johansen, Andy S. Anker, Ulrik Friis-Jensen, Erik B. Dam, Kirsten M. Ø. Jensen, Raghavendra Selvan:
A GPU-Accelerated Open-Source Python Package for Calculating Powder Diffraction, Small-Angle-, and Total Scattering with the Debye Scattering Equation. 6024 - Mengqi Zhao, Zarrar Khan, Kalyn Dorheim, Chris R. Vernon:
helios: An R package to process heating and cooling degrees for GCAM. 6033 - Nathan Musoke:
UltraDark.jl: A Julia package for simulation of cosmological scalar fields. 6035 - Matthew Peres Tino, Abbas Yusuf Abdulaziz, Robert Suderman, Thomas Akdeniz, Nasser Mohieddin Abukhdeir:
Shapelets: A Python package implementing shapelet functions and their applications. 6058 - Kevin D. Murray, Justin O. Borevitz, Detlef Weigel, Norman Warthmann:
Acanthophis: a comprehensive plant hologenomics pipeline. 6062 - Chris Byrohl, Dylan Nelson:
scida: scalable analysis for scientific big data. 6064 - Andres R. Tejedor, Ignacio Sanchez-Burgos, Eduardo Sanz, Carlos Vega, Felipe J. Blas, Ruslan L. Davidchack, Nicodemo Di Pasquale, Jorge Ramirez, Jorge R. Espinosa:
Mold: a LAMMPS package to compute interfacial free energies and nucleation rates. 6083 - Gerrit Ansmann:
A Python module to combine $p$ values arising from discrete tests. 6096 - Fred Shone, Theodore Chatziioannou, Bryn Pickering, Kasia Kozlowska, Michael Fitzmaurice:
PAM: Population Activity Modeller. 6097 - Robert van Leeuwen, Connor Ferster:
sectionproperties: A Python package for the analysis of arbitrary cross-sections using the finite element method. 6105 - Andrea Spinelli, Timoleon Kipouros:
PDOPT: A Python library for Probabilistic Design space exploration and OPTimisation. 6110 - J. McIntosh, Qian Cao, Berkman Sahiner, Nicholas Petrick, Mohammad Mehdi Farhangi:
DICaugment: A Python Package for 3D Medical Imaging Augmentation. 6120 - Maik Budzinski, João F. D. Rodrigues, Mathieu Delpierre:
bonsai_ipcc - a Python package for the calculation of national greenhouse gas inventories. 6123 - Nguyen Van Thieu:
PerMetrics: A Framework of Performance Metrics for Machine Learning Models. 6143 - J. Michael Johnson, Shahab Afshari, Arash Modaresi Rad:
AHGestimation: An R package for computing robust, mass preserving hydraulic geometries and rating curves. 6145 - Daiane I. Dolci, James R. Maddison, David A. Ham, Guillaume Pallez, Julien Herrmann:
checkpoint_schedules: schedules for incremental checkpointing of adjoint simulations. 6148 - James Duncan, Tiffany M. Tang, Corrine F. Elliott, Philippe Boileau, Bin Yu:
simChef: High-quality data science simulations in R. 6156 - Yangkang Chen, Zhongru Gu, Xiangjiang Zhan:
stemflow: A Python Package for Adaptive Spatio-Temporal Exploratory Model. 6158 - Tyler K. Chafin, Steven M. Mussmann, Marlis R. Douglas, Michael E. Douglas:
autoStreamTree: Genomic variant data fitted to geospatial networks. 6160 - Philipp Holl, Nils Thuerey:
Φ-ML: Intuitive Scientific Computing with Dimension Types for Jax, PyTorch, TensorFlow & NumPy. 6171 - Hendrik Mann:
dropout: an R Package for Addressing Dropouts, Missing Values, and Sectional Challenges in Survey Data Analysis. 6181 - Caleb Weinreb, Mohammed Abdal Monium Osman, Maya Jay, Sandeep R. Datta:
Systems Neuro Browser (SNUB). 6187 - Simon Dirmeier:
Surjectors: surjection layers for density estimation with normalizing flows. 6188 - Oskar Laverny, Santiago Jiménez:
Copulas.jl: A fully Distributions.jl-compliant copula package. 6189 - Frank Male:
Pywaterflood: Well connectivity analysis through capacitance-resistance modeling. 6191 - S. Mason Garrison, Michael D. Hunter, Xuanyu Lyu, Jonathan D. Trattner, S. Alexandra Burt:
BGmisc: An R Package for Extended Behavior Genetics Analysis. 6203 - Nicolas Frerebeau:
aion: An R Package to Represent Archaeological Time Series. 6210 - Federico Del Pup, Andrea Zanola, Louis Fabrice Tshimanga, Paolo Emilio Mazzon, Manfredo Atzori:
SelfEEG: A Python library for Self-Supervised Learning in Electroencephalography. 6224 - Dmitry Ustalov, Nikita Pavlichenko, Boris Tseitlin:
Learning from Crowds with Crowd-Kit. 6227 - Michael J. Roach, Bradley J. Hart, Sarah J. Beecroft, Bhavya Nalagampalli Papudeshi, Laura K. Inglis, Susanna R. Grigson, Vijini Mallawaarachchi, George Bouras, Robert A. Edwards:
Koverage: Read-coverage analysis for massive (meta)genomics datasets. 6235 - Meng Cai, Yingjie Li, Dirk Colbry, Veronica F. Frans, Yuqian Zhang:
seesus: a social, environmental, and economic sustainability classifier for Python. 6244 - Eric Lindgren, Magnus Rahm, Erik Fransson, Fredrik Eriksson, Nicklas Österbacka, Zheyong Fan, Paul Erhart:
calorine: A Python package for constructing and sampling neuroevolution potential models. 6264 - Harsh Sinha, Pradeep Reddy Raamana:
MRdataset : A unified and user-friendly interface to medical imaging datasets. 6269 - Alexander Jüstel, Frank Strozyk:
PyHeatDemand - Processing Tool for Heat Demand Data. 6275 - Robert Moss:
pypfilt: a particle filter for Python. 6276 - Aakash Ashok Naik, Katharina Ueltzen, Christina Ertural, Adam J. Jackson, Janine George:
LobsterPy: A package to automatically analyze LOBSTER runs. 6286 - Étienne Lac, Guy Spiegeleer, Adrien Delsalle, Frédéric Collonval, Duc-Trung Lê, Mathias Malandain:
CoSApp: a Python library to create, simulate and design complex systems. 6292 - Moritz L. Obenauer, Kai N. Spauszus, Pol Besenius, Friederike Schmid:
Project RACCOON: Automated construction of PDB files for polymers and polymer peptide conjugates. 6293 - Xinye Chen, Stefan Güttel:
fABBA: A Python library for the fast symbolic approximation of time series. 6294 - Ryan Kingsbury:
pyEQL: A Python interface for water chemistry. 6295 - Thomas Berlok, Léna Jlassi, Ewald Puchwein, Troels Haugbølle:
Paicos: A Python package for analysis of (cosmological) simulations performed with Arepo. 6296 - Shuang Song, Shuai Wang, Chentai Jiao, Elías José Mantilla Ibarra:
ABSESpy: An agent-based modeling framework for social-ecological systems. 6298 - Martin Kuric, Regina Ebert:
plotastic: Bridging Plotting and Statistics in Python. 6304 - Saipraneeth Devunuri, Lewis Lehe:
GTFS Segments: A Fast and Efficient Library to Generate Bus Stop Spacings. 6306 - Yu Wang, Emma R. Cobian, Jubilee Lee, Fang Liu, Jonathan D. Hauenstein, Daniele E. Schiavazzi:
LINFA: a Python library for variational inference with normalizing flow and annealing. 6309 - Essam Wisam, Anthony D. Blaom:
Imbalance: A comprehensive multi-interface Julia toolbox to address class imbalance. 6310 - Carson Farmer, Héctor Medina:
Hyperelastics.jl: A Julia package for hyperelastic material modelling with a large collection of models. 6314 - Shael Brown, Reza Farivar-Mohseni:
TDApplied: An R package for machine learning and inference with persistence diagrams. 6321 - Rohini S. Gupta, Chris R. Vernon, Travis Thurber, David F. Gold, Zachary M. Hirsch, Antonia Hadjimichael, Patrick M. Reed:
statemodify: a Python framework to facilitate accessible exploratory modeling for discovering drought vulnerabilities. 6325 - Matteo Ravasi, Marcus Valtonen Örnhag, Nick Luiken, Olivier Leblanc, Eneko Uruñuela:
PyProximal - scalable convex optimization in Python. 6326 - Aleksander Sulkowski, Clément Bouton, Chad M. Swanson:
Syn-CpG-Spacer: A Panel web app for synonymous recoding of viral genomes with CpG dinucleotides. 6332 - Damyn Chipman:
EllipticForest: A Direct Solver Library for Elliptic Partial Differential Equations on Adaptive Meshes. 6339 - Bartholomew Andrews:
HofstadterTools: A Python package for analyzing the Hofstadter model. 6356 - Andrew Gard, Alexia Myers, Irene Luwabelwa:
The fqar package: R tools for analyzing floristic quality assessment data. 6366 - Alexander D. Fuchs, Johannes A. F. Lehmeyer, Heinz Junkes, Heiko B. Weber, Michael Krieger:
NOMAD CAMELS: Configurable Application for Measurements, Experiments and Laboratory Systems. 6371 - Gabriele Ottino, Daniele Panico, Daniele Tomatis, Pierre-Alexandre Pantel:
lbh15: a Python package for standard use and implementation of physical data of heavy liquid metals used in nuclear reactors. 6383 - Xin Zhao, Maksym Chepeliev, Pralit Patel, Marshall Wise, Katherine V. Calvin, Kanishka Narayan, Chris R. Vernon:
gcamfaostat: An R package to prepare, process, and synthesize FAOSTAT data for global agroeconomic and multisector dynamic modeling. 6388 - Karelle Rheault, Jesper R. Christiansen, Klaus Steenberg Larsen:
goFlux: A user-friendly way to calculate GHG fluxes yourself, regardless of user experience. 6393 - Joanna Piper Morgan, Ilham Variansyah, Samuel L. Pasmann, Kayla B. Clements, Braxton Cuneo, Alexander Mote, Charles Goodman, Caleb Shaw, Jordan Northrop, Rohan Pankaj, Ethan Lame, Benjamin Whewell, Ryan G. McClarren, Todd S. Palmer, Lizhong Chen, Dmitriy Y. Anistratov, C. T. Kelley, Camille J. Palmer, Kyle E. Niemeyer:
Monte Carlo / Dynamic Code (MC/DC): An accelerated Python package for fully transient neutron transport and rapid methods development. 6415 - Seán R. Kavanagh, Alexander G. Squires, Adair Nicolson, Irea Mosquera-Lois, Alex M. Ganose, Bonan Zhu, Katarina Brlec, Aron Walsh, David O. Scanlon:
doped: Python toolkit for robust and repeatable charged defect supercell calculations. 6433 - Guillaume Dalle:
HiddenMarkovModels.jl: generic, fast and reliable state space modeling. 6436 - Pierre J. Walker, Andrés Riedemann, Zhen-Gang Wang:
GCIdentifier.jl: A Julia package for identifying molecular fragments from SMILES. 6453 - Maria Florencia D'Andrea, Pilar Fernández:
quadkeyr: Tools for converting QuadKey-identified datasets (Microsoft's Bing Maps Tile System) into raster images and analyzing Meta (Facebook) Mobility Data. 6500 - Metin San:
ZodiPy: A Python package for zodiacal light simulations. 6648
Volume 9, Number 97, 2024
- Nicolas T. Kurtovic:
SIMIO-continuum: Connecting simulations to ALMA observations. 4942 - Maxime Faymonville, Javiera Riffo, Jonas Rieger, Carsten Jentsch:
spINAR: An R Package for Semiparametric and Parametric Estimation and Bootstrapping of Integer-Valued Autoregressive (INAR) Models. 5386 - Abigail Snyder, Kalyn Dorheim, Claudia Tebaldi, Chris R. Vernon:
STITCHES: a Python package to amalgamate existing Earth system model output into new scenario realizations. 5525 - Sterling G. Baird, Hasan M. Sayeed, Joseph H. Montoya, Taylor D. Sparks:
matbench-genmetrics: A Python library for benchmarking crystal structure generative models using time-based splits of Materials Project structures. 5618 - Isaac Thompson, Chris R. Vernon, Zarrar Khan:
Tethys: A Spatiotemporal Downscaling Model for Global Water Demand. 5855 - Alexander Jaffray, Zhe Wu, S. Johanna Vannesjo, Kâmil Uludag, Lars Kasper:
GIRFReco.jl: An Open-Source Pipeline for Spiral Magnetic Resonance Image (MRI) Reconstruction in Julia. 5877 - Thomas Walzthoeni, Bom Bahadur Singiali, N. William Rayner, Francesco Paolo Casale, Christoph Feest, Carsten Marr, Alf Wachsmann:
SCAS dashboard: A tool to intuitively and interactively analyze Slurm cluster usage. 6017 - Joaquin A. Peraza Rud, Tyson E. Ochsner, Andres Patrignani:
CRNPy: An Open-Source Python Library for Cosmic-Ray Neutron Probe Data Processing. 6025 - Michael T. Kuczynski, Nathan Neeteson, Kathryn S. Stok, Andrew Burghardt, Michelle A. Espinosa Hernandez, Jared Vicory, Justin J. Tse, Pholpat Durongbhan, Serena Bonaretti, Andy Kin On Wong, Steven K. Boyd, Sarah L. Manske:
ORMIR_XCT: A Python package for high resolution peripheral quantitative computed tomography image processing. 6084 - Max C. Gallant, Kristin A. Persson:
pylattica: a package for prototyping lattice models in chemistry and materials science. 6170 - Kevin Ingles, D. Liyanage, Alexandra Semposki, John C. Yannotty:
Taweret: a Python package for Bayesian model mixing. 6175 - Petr Koráb, Jitka Pomenková:
Arabica: A Python package for exploratory analysis of text data. 6186 - Derod Deal, Néstor Espinoza:
Spelunker: A quick-look Python pipeline for JWST NIRISS FGS Guide Star Data. 6202 - Pierre Borie, Alain Marcotte, Fabian Bastin, Stéphane Dellacherie:
Enlsip.jl: A Julia optimization package to solve constrained nonlinear least-squares problems. 6226 - Julia Wind, Asbjørn Ulvestad, Muhammad Abdelhamid, Jan Petter Mæhlen:
Cellpy - an open-source library for processing and analysis of battery testing data. 6236 - Felix Jung, Debsankha Manik:
RidePy: A fast and modular framework for simulating ridepooling systems. 6241 - Stefano Scali, Simon Horsley, Janet Anders, Federico Cerisola:
SpiDy.jl: open-source Julia package for the study of non-Markovian stochastic dynamics. 6263 - Juan Cordero, Kevin Donkers, Ian Harrison, Sarah Bridle, Angelina Frankowska, Michelle Cain, Neil Ward, Jez Frendenburgh, Edward Pope, Alana Kluczkovski, Ximena Schmidt, Jacqueline Silva, Christian Reynolds, Katherine J. Denby, Bob Doherty, Aled Jones:
AgriFoodPy: a package for modelling food systems. 6305 - Gerit Wagner:
BibDedupe: An Open-Source Python Library for Bibliographic Record Deduplication. 6318 - Tushar Patni, Yimei Li, Jianrong Wu:
gsMAMS: an R package for Designing Multi-Arm Multi-Stage Clinical Trials. 6322 - Katja Heuer, Nicolas Traut, Roberto Toro:
Thresholdmann: A Web tool for interactively creating adaptive thresholds to segment MRI data. 6336 - Hongyang Cheng, Luisa Orozco, Retief Lubbe, Aron Jansen, Philipp Hartmann, Klaus Thoeni:
GrainLearning: A Bayesian uncertainty quantification toolbox for discrete and continuum numerical models of granular materials. 6338 - Kieran B. Spooner, Maud Einhorn, Daniel W. Davies, David O. Scanlon:
ThermoParser: Streamlined Analysis of Thermoelectric Properties. 6340 - Julian Belina, Noah Pflugradt, Detlef Stolten:
ETHOS.PeNALPS: A Tool for the Load Profile Simulation of Industrial Processes Based on a Material Flow Simulation. 6358 - Olivia S. Smith, Eucharist Kun, Vagheesh Narasimhan:
HARE: A Python workflow for analyzing genomic feature enrichment in GWAS datasets. 6359 - Christian Dunkerly, Justin L. Huntington, Daniel J. McEvoy, Asa Morway, Richard G. Allen:
agweather-qaqc: An Interactive Python Package for Quality Assurance and Quality Control of Daily Agricultural Weather Data and Calculation of Reference Evapotranspiration. 6368 - Oliver R. A. Dunbar, Melanie Bieli, Alfredo Garbuno-Iñigo, Michael Howland, Andre Nogueira de Souza, Laura Anne Mansfield, Gregory LeClaire Wagner, N. Efrat-Henrici:
CalibrateEmulateSample.jl: Accelerated Parametric Uncertainty Quantification. 6372 - Naim Göksel Karaçayli:
QSOnic: fast quasar continuum fitting. 6373 - Oliver Lylloff:
AeroAcoustics.jl: A Julia package for aeroacoustics. 6390 - Ludger Sandig:
Kirstine.jl: A Julia Package for Bayesian Optimal Design of Experiments. 6424 - Tim Büchner, Oliver Mothes, Orlando Guntinas-Lichius, Joachim Denzler:
JeFaPaTo - A joint toolbox for blinking analysis and facial features extraction. 6425 - Devrim Cavusoglu, Seçil Sen, Ulas Sert, Sinan Altinuc:
Jury: A Comprehensive Evaluation Toolkit. 6452 - Leo A. Bianchi:
HealpixMPI.jl: an MPI-parallel implementation of the Healpix tessellation scheme in Julia. 6467 - Caleb N. Ellington, Benjamin J. Lengerich, Wesley Lo, Aaron Alvarez, Andrea Rubbi, Manolis Kellis, Eric P. Xing:
Contextualized: Heterogeneous Modeling Toolbox. 6469 - Dan E. Kelley:
whalestrike: An R package for simulating ship strikes on whales. 6473 - Thibault Fillion, Francesco Piazza:
STReNGTHS, a Python package to model and simulate complex reaction-diffusion systems. 6495 - Steven G. Murray, Jonathan C. Pober, Matthew Kolopanis:
21cmSense v2: A modular, open-source 21 cm sensitivity calculator. 6501 - Bryna J. Hazelton, Matthew Kolopanis, Adam Lanman, Jonathan C. Pober:
pyradiosky: A Python package for Radio Sky Models. 6503 - Alexander Barth:
NCDatasets.jl: a Julia package for manipulating netCDF data sets. 6504 - Thomas Roy, Julian Andrej, Aymeric Antimes, Victor A. Beck, Victoria Ehlinger, Florian Euzenat, Nitish Govindarajan, Jack Guo, Tiras Y. Lin, Thomas Moore:
EchemFEM: A Firedrake-based Python package for electrochemical transport. 6531 - Anja Korber, Fabio E. Furcas, Mohit Pundir, David S. Kammer, Ueli Angst:
PourPy - A python package to generate potential-pH diagrams. 6536 - Iniyan Natarajan, Lindy Blackburn, Paul Tiede, Dominic W. Pesce, Freek Roelofs:
Anime: Atmospheric and Instrument Models in the Measurement Equation. 6573 - Stefano Rinaldi, Walter Del Pozzo:
FIGARO: hierarchical non-parametric inference for population studies. 6589 - Jeremy Magland, Jeff Soules, Cody Baker, Benjamin K. Dichter:
Neurosift: DANDI exploration and NWB visualization in the browser. 6590 - Ajit Johnson Nirmal, Peter K. Sorger:
SCIMAP: A Python Toolkit for Integrated Spatial Analysis of Multiplexed Imaging Data. 6604 - Lars Hellemo, Espen Flo Bødal, Sigmund Eggen Holm, Dimitri Pinel, Julian Straus:
EnergyModelsX: Flexible Energy Systems Modelling with Multiple Dispatch. 6619 - Nicolas Oudart:
PyBWE: Python tools for Bandwidth Extrapolation of planetary radar signals. 6622 - Ankit Barik, Regupathi Angappan:
planetMagFields: A Python package for analyzing and plotting planetary magnetic field data. 6677 - Alexander Fabisch:
movement_primitives: Imitation Learning of Cartesian Motion with Movement Primitives. 6695 - Kristof Haneca:
fellingdater: a toolkit to estimate, report and combine felling dates derived from historical tree-ring series. 6716 - Thiago Araujo:
PySymmPol - Symmetric Polynomials. 6724
Volume 9, Number 98, 2024
- James W. Nightingale, Richard J. Massey, Jacob A. Kegerreis, Richard G. Hayes:
PyAutoCTI: Open-Source Charge Transfer Inefficiency Calibration. 4904 - Felix Leeb:
omni-fig: Unleashing Project Configuration and Organization in Python. 5350 - Lingfeng Luo, Wenbo Wu, Jeremy M. G. Taylor, Jian Kang, Michael J. Kleinsasser, Kevin He:
surtvep: An R package for estimating time-varying effects. 5688 - Mathias Michielsen:
Foam: A Python package for forward asteroseismic modelling of gravity modes. 5884 - Werner Goebl, David M. Weigl:
mei-friend: An Interactive Web-based Editor for Digital Music Encodings. 6002 - Deborah Ferguson, Surendra Anne, Miguel Gracia-Linares, Hector Iglesias, Aasim Jan, Erick Martinez, Lu Lu, Filippo Meoni, Ryan Nowicki, Max L. Trostel, Bing-Jyun Tsao, Finny Valorz:
Mayawaves: Python Library for Interacting with the Einstein Toolkit and the MAYA Catalog. 6032 - Jean Carlos Faoot Maia, Wagner Hugo Bonat:
Multivariate Covariance Generalized Linear Models in Python: The mcglm library. 6037 - Thomas Seidler, Fabian Emmerich, Kristian Ehlert, Rico Berner, Oliver Nagel-Kanzler, Norbert Schultz, Markus Quade, Martin G. Schultz, Markus Abel:
Mantik: A Workflow Platform for the Development of Artificial Intelligence on High-Performance Computing Infrastructures. 6136 - David-Elias Künstle, Ulrike von Luxburg:
cblearn: Comparison-based Machine Learning in Python. 6139 - Allison Kubo Hutchison, Leif Karlstrom, Tushar Mittal:
LinkingLines: Using the Hough Transform to Cluster Line Segments and Mesoscale Feature Extraction. 6147 - Hélène Kabbech, Ihor Smal:
TrackSegNet: a tool for trajectory segmentation into diffusive states using supervised deep learning. 6157 - Ronan Docherty, Isaac Squires, Antonis Vamvakeros, Samuel J. Cooper:
SAMBA: A Trainable Segmentation Web-App with Smart Labelling. 6159 - Milan Klöwer, Maximilian Gelbrecht, Daisuke Hotta, Justin Willmert, Simone Silvestri, Gregory LeClaire Wagner, Alistair White, Sam Hatfield, Tom Kimpson, Navid C. Constantinou, Christopher Hill:
SpeedyWeather.jl: Reinventing atmospheric general circulation models towards interactivity and extensibility. 6323 - Llibert Aresté Saló, Sam E. Brady, Katy Clough, Daniela Doneva, Tamara Evstafyeva, Pau Figueras, Tiago França, Lorenzo Rossi, Shunhui Yao:
GRFolres: A code for modified gravity simulations in strong gravity. 6369 - Jonas Schuhmacher, Emmanuel Blazquez, Fabio Alexander Gratl, Dario Izzo, Pablo Gómez:
Efficient Polyhedral Gravity Modeling in Modern C++ and Python. 6384 - Jakob Hærvig:
OpenTerrace: A fast, flexible and extendable Python framework for thermal energy storage packed bed simulations. 6411 - Francesco Lombardi, Pierre-François Duc, Mohammad Amin Tahavori, Claudia Sanchez-Solis, Sarah Eckhoff, Maria C. G. Hart, Francesco Davide Sanvito, Gregory Ireland, Sergio Balderrama, Johann Kraft, Gokarna Dhungel, Sylvain Quoilin:
RAMP: stochastic simulation of user-driven energy demand time series. 6418 - Tom Vo, Stephen Po-Chedley, Jason Boutte, Ji-Woo Lee, Chengzhu Zhang:
xCDAT: A Python Package for Simple and Robust Analysis of Climate Data. 6426 - Mateusz Dadej:
MarSwitching.jl: A Julia package for Markov switching dynamic models. 6441 - Leonardo Egidi, Roberta Pappadà, Francesco Pauli, Nicola Torelli:
pivmet: an R package proposing pivotal methods for consensus clustering and mixture modelling. 6461 - Mike Sportiello, David J. Topham:
MousebreedeR: A novel software to assist in the design of breeding schema for complex genotypes of experimental organisms. 6474 - Daniel E. Kaufman, Walter E. Baskin:
ncompare: A Python package for comparing netCDF structures. 6490 - Dominik Grzelak:
BiGGer: A Model Transformation Tool written in Java for Bigraph Rewriting in GrGen.NET. 6491 - Evan M. Dastin-van Rijn, Joel Nielsen, Elizabeth M. Sachse, Christina Li, Megan E. Mensinger, Stefanie G. Simpson, Michelle C. Buccini, Francesca A. Iacobucci, David J. Titus, Alik S. Widge:
Pybehave: a hardware agnostic, Python-based framework for controlling behavioral neuroscience experiments. 6515 - Yigitcan Özer, Leo Brütting, Simon J. Schwär, Meinard Müller:
libsoni: A Python Toolbox for Sonifying Music Annotations and Feature Representations. 6524 - Jakob Roth, Martin Reinecke, Gordian Edenhofer:
JAXbind: Bind any function to JAX. 6532 - Eric M. Fell, Jeremy A. Fell, Michael J. Aziz:
RFBzero: A Python package for zero-dimensional simulation of redox flow battery cycling. 6537 - Samuel Juhel:
BoARIO: A Python package implementing the ARIO indirect economic cost model. 6547 - Arthur Amalvy, Vincent Labatut, Richard Dufour:
Renard: A Modular Pipeline for Extracting Character Networks from Narrative Texts. 6574 - Stephan Struckmann, Joany Mariño, Elisa Kasbohm, Elena Salogni, Carsten Oliver Schmidt:
dataquieR 2: An updated R package for FAIR data quality assessments in observational studies and electronic health record data. 6581 - Seyong Park, Zachary Nasipak:
KerrGeoPy: A Python Package for Computing Timelike Geodesics in Kerr Spacetime. 6587 - Gordian Edenhofer, Philipp Frank, Jakob Roth, Reimar H. Leike, Massin Guerdi, Lukas I. Scheel-Platz, Matteo Guardiani, Vincent Eberle, Margret Westerkamp, Torsten A. Enßlin:
Re-Envisioning Numerical Information Field Theory (NIFTy.re): A Library for Gaussian Processes and Variational Inference. 6593 - D. G. Mathews, C. B. Crawford, S. Baeßler, N. Birge, L. J. Broussard, F. Gonzalez, Leendert Hayen, Aaron Jezghani, H. Li, Russell Mammei, August Mendelsohn, Glenn Randall, G. V. Riley, D. C. Schaper:
Delta-Rice: A HDF5 Compression Plugin optimized for Digitized Detector Data. 6598 - Vidar Skogvoll, Jonas Rønning:
ComFiT: a Python library for computational field theory with topological defects. 6599 - Edson Porto da Silva, Adolfo Fernandes Herbster:
OptiCommPy: Open-source Simulation of Fiber Optic Communications with Python. 6600 - Carl Julius Martensen, Christoph Plate, Sebastian Sager:
DynamicOED.jl: A Julia package for solving optimum experimental design problems. 6605 - Rafael Bailo, Alethea Barbaro, Susana N. Gomes, Konstantin Riedl, Tim Roith, Claudia Totzeck, Urbain Vaes:
CBX: Python and Julia Packages for Consensus-Based Interacting Particle Methods. 6611 - Anya E. Vostinar, Alexander Lalejini, Charles Ofria, Emily L. Dolson, Matthew Andres Moreno:
Empirical: A scientific software library for research, education, and public engagement. 6617 - Istvan Albert:
GeneScape: A Python package for gene ontology visualization. 6624 - Magdalena Fuentes, Genís Plaja-Roglans, Guillem Cortès-Sebastià, Tanmay Khandelwal, Marius Miron, Xavier Serra, Juan Pablo Bello, Justin Salamon:
Soundata: Reproducible use of audio datasets. 6634 - Victor A. Paludetto Magri:
Hypredrive: High-level interface for solving linear systems with hypre. 6654 - Guillaume Fieni, Daniel Romero Acero, Pierre Rust, Romain Rouvoy:
PowerAPI: A Python framework for building software-defined power meters. 6670 - Herminio Vazquez, Virginie Grosboillot:
cuallee: A Python package for data quality checks across multiple DataFrame APIs. 6684 - Levi T. Sweet-Breu, Em Rexer, Chris R. Vernon, Melissa R. Allen-Dumas, Stefan Krawczyk:
naturf: a package for generating urban parameters for numerical weather modeling. 6712 - Pamphile T. Roy, Mariia Kozlova:
Simulation Decomposition in Python. 6713 - Stavros Ntioudis, James P. Ewen, Daniele Dini, C. Heath Turner:
PAPRECA: A parallel hybrid off-lattice kinetic Monte Carlo/molecular dynamics simulator. 6714 - Rodrigo Pires, Anna Hepworth, Rebecca O'leary, Jonathan Carroll, James Goldie, Dean Marchiori, Paul Melloy, Mark Padgam, Hugh Parsonage, Adam H. Sparks:
weatherOz: An API Client for Australian Weather and Climate Data Resources in R. 6717 - Maximilian Bittens:
OpenGeoSysUncertaintyQuantification.jl: a Julia library implementing an uncertainty quantification toolbox for OpenGeoSys. 6725 - Tobias Marke, Ulrich Löhnert, Simo Tukiainen, Tuomas Siipola, Bernhard Pospichal:
MWRpy: A Python package for processing microwave radiometer data. 6733 - Luiz Irber, N. Tessa Pierce-Ward, Mohamed Abuelanin, Harriet Alexander, Abhishek Anant, Keya Barve, Colton Baumler, Olga B. Botvinnik, Phillip Brooks, Daniel Dsouza, Gautier Laurent, Mahmudur Rahman Hera, Hannah Eve Houts, Lisa K. Johnson, Fabian Klötzl, David Koslicki, Marisa Lim, Ricky Lim, Bradley Nelson, Ivan Ogasawara, Taylor Reiter, Camille Scott, Andreas Sjödin, Daniel S. Standage, S. Joshua Swamidass, Connor Tiffany, Pranathi Vemuri, Erik Young, C. Titus Brown:
sourmash v4: A multitool to quickly search, compare, and analyze genomic and metagenomic data sets. 6830 - Dongdong Tian:
HinetPy: A Python package for accessing and processing NIED Hi-net seismic data. 6840 - Kyle A. Oman:
MARTINI: Mock Array Radio Telescope Interferometry of the Neutral ISM. 6860 - Jérome Eertmans, Claude Oestges, Laurent Jacques:
DiffeRT2d: A Differentiable Ray Tracing Python Framework for Radio Propagation. 6915
Volume 9, Number 99, 2024
- Juan Manuel Coria, Hervé Bredin, Sahar Ghannay, Sophie Rosset, Khaled Zaouk, Ingo Fruend, Bertrand Higy, Amit Kesari, Yagna Thakkar:
Diart: A Python Library for Real-Time Speaker Diarization. 5266 - Yaroslav O. Halchenko, Mathias Goncalves, Satrajit S. Ghosh, Pablo Velasco, Matteo Visconti di Oleggio Castello, Taylor Salo, John T. Wodder, Michael Hanke, Patrick S. Sadil, Krzysztof J. Gorgolewski, Horea-Ioan Ioanas, Chris Rorden, Timothy J. Hendrickson, Michael Dayan, Sean Dae Houlihan, James D. Kent, Ted J. Strauss, John A. Lee, Isaac To, Christopher J. Markiewicz, Darren Lukas, Ellyn R. Butler, Todd Thompson, Maite Termenon, David V. Smith, Austin Macdonald, David N. Kennedy:
HeuDiConv - flexible DICOM conversion into structured directory layouts. 5839 - Michael J. Carley:
NBI: A library for Nystrom Boundary Integral calculations. 5972 - Julian Ceddia, Jack Hellerstedt, Benjamin Lowe, Agustin Schiffrin:
Scanbot: An STM Automation Bot. 6028 - Mark Blokpoel:
mathlib: A Scala package for readable, verifiable and sustainable simulations of formal theory. 6049 - Dingcheng Luo, Peng Chen, Thomas O'Leary-Roseberry, Umberto Villa, Omar Ghattas:
SOUPy: Stochastic PDE-constrained optimization under high-dimensional uncertainty in Python. 6101 - William W. Hannon, Jesse D. Bloom:
dms-viz: Structure-informed visualizations for deep mutational scanning and other mutation-based datasets. 6129 - Mengbing Li, Bolin Wu, Briana Stephenson, Zhenke Wu:
ddtlcm: An R package for overcoming weak separation in Bayesian latent class analysis via tree-regularization. 6220 - Johnny Corbino, Miguel A. Dumett, José E. Castillo:
MOLE: Mimetic Operators Library Enhanced. 6288 - Manuel Wetzel, Eugenio S. Arellano Ruiz, Francesco Witte, Jens Schmugge, Shima Sasanpour, Madhura Yeligeti, Fabia Miorelli, Jan Buschmann, Karl-Kiên Cao, Niklas Wulff, Hedda Gardian, Alexander Rubbert, Benjamin Fuchs, Yvonne Scholz, Hans Christian Gils:
REMix: A GAMS-based framework for optimizing energy system models. 6330 - Ehsan Gharib-Nezhad, Natasha E. Batalha, Hamed Valizadegan, Miguel J. S. Martinho, Mahdi Habibi, Gopal Nookula:
TelescopeML - I. An End-to-End Python Package for Interpreting Telescope Datasets through Training Machine Learning Models, Generating Statistical Reports, and Visualizing Results. 6346 - Michael Dumelle, Erin E. Peterson, Jay M. Ver Hoef, Alan Pearse, Daniel J. Isaak:
SSN2: The next generation of spatial stream network modeling in R. 6389 - Mossa Merhi Reimert, Josiah D. Parry, Matt Denwood, Maya Katrin Gussmann, Claus O. Wilke, Ilia Kosenkov, Michael Milton, Amy Thomason:
extendr: Frictionless bindings for R and Rust. 6394 - Alex Zwanenburg, Steffen Löck:
MIRP: A Python package for standardised radiomics. 6413 - Timothy A Sipkens, Ramin Dastanpour, Una Trivanovic, Hamed Nikookar, Steven N. Rogak:
atems: Analysis tools for TEM images of carbonaceous particles. 6416 - Fazila Rubab, Sara Iftikhar, Ather Abbas:
SeqMetrics: a unified library for performance metrics calculation in Python. 6450 - Jan Swierczek-Jereczek, George Datseris:
TransitionsInTimeseries.jl: A performant, extensible and reliable software for reproducible detection and prediction of transitions in timeseries. 6464 - Jonathan Knirsch, Felix Frölich, Lukas Hof, Florian Wittemann, Luise Kärger:
pyGCodeDecode: A Python package for time-accurate GCode simulation in material extrusion processes. 6465 - Ned Thaddeus Taylor:
ATHENA: A Fortran package for neural networks. 6492 - Nathan Reitinger:
CART: A Tool for Making Paper Relevancy Screening Easier. 6494 - Erik Forsberg:
D3mirt: Descriptive Three-Dimensional Multidimensional Item Response Theory for R. 6523 - Heli Xu, Ran Li, Usama Bilal:
findSVI: an R package to calculate the Social Vulnerability Index at multiple geographical levels. 6525 - Ole-Christian Galbo Engstrøm, Erik Schou Dreier, Birthe Møller Jespersen, Kim Steenstrup Pedersen:
IKPLS: Improved Kernel Partial Least Squares and Fast Cross-Validation Algorithms for Python with CPU and GPU Implementations Using NumPy and JAX. 6533 - Huzaifa Mustafa Unjhawala, Ishaan Mahajan, Radu Serban, Dan Negrut:
A Library of Lower Fidelity Dynamics Models (LFDMs) For On-Road Vehicle Dynamics Targeting Faster Than Real-Time Applications. 6548 - Rafael Orozco, Philipp A. Witte, Mathias Louboutin, Ali Siahkoohi, Gabrio Rizzuti, Bas Peters, Felix J. Herrmann:
InvertibleNetworks.jl: A Julia package for scalable normalizing flows. 6554 - Aurélien Stcherbinine, Yves Langevin, John Carter, Mathieu Vincendon, Yann Leseigneur, Océane Barraud:
OMEGA-Py: Python Tools for OMEGA Data. 6566 - J. M. Joel Ong, Martin B. Nielsen, Emily J. Hatt, Guy R. Davies:
Reggae: A Parametric Tuner for PBJam, and a Visualization Tool for Red Giant Oscillation Spectra. 6588 - Tangui Aladjidi, Clara Piekarski, Quentin Glorieux:
NLSE: A Python package to solve the nonlinear Schrödinger equation. 6607 - Cibrán López, Riccardo Rurali, Claudio Cazorla:
IonDiff: command-line tool to identify ionic diffusion events and hopping correlations in molecular dynamics simulations. 6616 - Thiago Glissoi Lopes, Paulo Monteiro De Carvalho Monson, Paulo Roberto de Aguiar, Reinaldo Götz Oliveira Junior, Pedro O. Conceição Junior:
fff_segmenter: A signal segmentation script for acoustic FFF fabrication data in MATLAB. 6620 - Amy Defnet, William M. Hasling, Laura E. Condon, Amy M. Johnson, Georgios Artavanis, Amanda K. Triplett, William Lytle, Reed Maxwell:
hf_hydrodata: A Python package for accessing hydrologic simulations and observations across the United States. 6623 - Julian Boesch:
DistriFS: A Platform and User Agnostic Approach to Dataset Distribution. 6625 - Gordon D. Webster, Alex Lancaster:
scribl: A system for the semantic capture of relationships in biological literature. 6645 - R. P. Cardoso Coelho, A. Francisca Carvalho Alves, T. M. Nogueira Pires, F. M. Andrade Pires:
piglot: an Open-source Package for Derivative-free Optimisation of Numerical Responses. 6652 - Sharon Fitzpatrick, Daniel Buscombe, Jonathan A. Warrick, Mark A. Lundine, Kilian Vos:
CoastSeg: an accessible and extendable hub for satellite-derived-shoreline (SDS) detection and mapping. 6683 - Yonatan Tarazona Coronel, Fernando Benitez-Paez, Jakub Nowosad, Fabian Drenkhan, Martín E. Timaná:
scikit-eo: A Python package for Remote Sensing Data Analysis. 6692 - Luke Dicks, Edward O. Pyzer-Knapp:
TopSearch: a Python package for topographical analysis of machine learning models and physical systems. 6711 - Hannah Sherrod, Nicholas Leong, Hannah Hapich, Fabian Gomez, Shelly Moore, Ben Maurer, Scott Coffin, Leah Thornton Hampton, Tony Hale, Richard Nelson, Clare Murphy-Hagan, Oluniyi O. Fadare, Anna Kukkola, Hsuan-Cheng Lu, Laura Markley, Win Cowger:
One4All: An Open Source Portal to Validate and Share Microplastics Data and Beyond. 6715 - David Ittah, Ali Asadi, Erick Ochoa Lopez, Sergei Mironov, Samuel Banning, Romain Moyard, Mai Jacob Peng, Josh A. Izaac:
Catalyst: a Python JIT compiler for auto-differentiable hybrid quantum programs. 6720 - Biplov Bhandari, Timothy J. Mayer:
servir-aces: A Python Package for Training Machine Learning Models for Remote Sensing Applications. 6729 - Denis V. Voskov, Ilshat Saifullin, Aleksei Novikov, Michiel Wapperom, Luisa Orozco, Gabriel Serrão Seabra, Yuan Chen, Mark Khait, Xiaocong Lyu, Xiaoming Tian, Stephan de Hoop, Artur Palha:
open Delft Advanced Research Terra Simulator (open-DARTS). 6737 - Shane Elipot, Philippe Miron, Milan Curcic, Kevin Santana, Rick Lumpkin:
Clouddrift: a Python package to accelerate the use of Lagrangian data for atmospheric, oceanic, and climate sciences. 6742 - Daniel Turek, Perry de Valpine, Christopher J. Paciorek:
nimbleHMC: An R package for Hamiltonian Monte Carlo sampling in nimble. 6745 - Renato Laffranchi Falcão, Jorás Custódio Campos de Oliveira, Pedro Henrique Britto Aragão Andrade, Ricardo Ribeiro Rodrigues, Fabrício Jailson Barth, José Fernando Basso Brancalion:
DSSE: An environment for simulation of reinforcement learning-empowered drone swarm maritime search and rescue missions. 6746 - Amanda K. Triplett, Georgios Artavanis, William M. Hasling, Reed Maxwell, Amy Defnet, Amy M. Johnson, William Lytle, Andrew Bennett, Elena Leonarduzzi, Lisa K. Gallagher, Laura E. Condon:
SubsetTools: A Python package to subset data to build and run ParFlow hydrologic models. 6752 - Lukas Riedel, Chahan M. Kropf, Timo Schmid:
A Module for Calibrating Impact Functions in the Climate Risk Modeling Platform CLIMADA. 6755 - Thivin Anandh, Divij Ghose, Sashikumaar Ganesan:
FastVPINNs: An efficient tensor-based Python library for solving partial differential equations using hp-Variational Physics Informed Neural Networks. 6764 - Manuel Razo-Mejia:
AutoEncoderToolkit.jl: A Julia package for training (Variational) Autoencoders. 6794 - Junxiang Wang, Liang Zhao:
GraphSL: An Open-Source Library for Graph Source Localization Approaches and Benchmark Datasets. 6796 - Tommy Jones:
tidylda: An R Package for Latent Dirichlet Allocation Using 'tidyverse' Conventions. 6800 - Brandon Pardi, Syeda Tajin Ahmed, Silvia Jonguitud Flores, Warren Flores, Jean-Michel Friedt, Laura L. E. Mears, Bernardo Yáñez Soto, Roberto C. Andresen Eguiluz:
pyQCM-BraTaDio: A tool for visualization, data mining, and modelling of Quartz crystal microbalance with dissipation data. 6831 - Martin Grunnill, Julien Arino, Abbas Ghasemi, Edward W. Thommes, Jianhong Wu:
MetaCast: A package for broadCASTing epidemiological and ecological models over META-populations. 6851 - Cory Kinney, Subith Vasu:
rgfrosh: A Python package for calculating shock conditions using real gas equations of state. 6855 - Björn Baumeier, Jens Wehner, Nicolas Renaud, Felipe Zapata, Rene Halver, Pranav Madhikar, Ruben Gerritsen, Gianluca Tirimbo, Javier Sijen, David Rosenberger, Joshua S. Brown, Vivek Sundaram, Jakub Krajniak, Marvin Bernhardt, Christoph Junghans:
VOTCA: multiscale frameworks for quantum and classical simulations in soft matter. 6864 - Tennessee Leeuwenburg, Nicholas Loveday, Elizabeth E. Ebert, Harrison Cook, Mohammadreza Khanarmuei, Robert J. Taggart, Nikeeth Ramanathan, Maree Carroll, Stephanie Chong, Aidan Griffiths, John Sharples:
scores: A Python package for verifying and evaluating models and predictions with xarray. 6889 - Tarmo Nurmi, Arash Badie Modiri, Corinna Coupette, Mikko Kivelä:
pymnet: A Python Library for Multilayer Networks. 6930
Volume 9, Number 100, 2024
- Vlad Stefan Barbu, Ioannis Mavrogiannis, Nicolas Vergne:
dsmmR: Estimation and Simulation of Drifting Semi-Markov Models. 5572 - Anthony Galassi, Martin Nørgaard, Adam G. Thomas, Gabriel Gonzalez-Escamilla, Claus Svarer, Chris Rorden, Granville J. Matheson, Gitte Moos Knudsen, Robert B. Innis, Melanie Ganz, Cyrus Eierud, Murat Bilgel, Cyril R. Pernet:
PET2BIDS: a library for converting Positron Emission Tomography data to BIDS. 6067 - Arjun B. Savel, Megan Bedell, Eliza M.-R. Kempton:
cortecs: A Python package for compressing opacities. 6104 - Florian Krause, Nikos Kogias:
Scan Session Tool: (f)MRI scan session documentation and archiving. 6126 - Christopher Marroquin, Jacob Clark, Dorian Portillo, Sanjay Soundarajan, Tram Ngo, Bhavesh Patel:
SODA: Software to Support the Curation and Sharing of FAIR Autonomic Nervous System Data. 6140 - Edward Berman, Jacqueline McCleary:
ShOpt.jl: A Julia Package for Empirical Point Spread Function Characterization of JWST NIRCam Data. 6144 - Eric G. Suchanek:
proteusPy: A Python Package for Protein Structure and Disulfide Bond Modeling and Analysis. 6169 - Osamu Waseda, Tilmann Hickel, Jörg Neugebauer:
mamonca: magnetic Monte Carlo code. 6194 - Mohammadamin Sinichi, Martin Gevonden, Lydia Krabbendam:
WearableHRV: A Python package for the validation of heart rate and heart rate variability in wearables. 6240 - Sagar Narwade, Gillian Kant, Benjamin Säfken, Benjamin Leiding:
SIRITVIS: Social Interaction Research Insights Topic Visualisation. 6243 - Jason Kaye, Hugo U. R. Strand, Nils Wentzell:
cppdlr: Imaginary time calculations using the discrete Lehmann representation. 6297 - Edward Bergman, Matthias Feurer, Aron Bahram, Amir Rezaei Balef, Lennart Purucker, Sarah Segel, Marius Lindauer, Frank Hutter, Katharina Eggensperger:
AMLTK: A Modular AutoML Toolkit in Python. 6367 - Joy Velasquez, Nicholas A. Murphy, Katharine K. Reeves, Jonathan Slavin, Mark Weber, Will T. Barnes:
XRTpy: A Hinode-X-Ray Telescope Python Package. 6396 - Matthew D. Tankersley:
PolarToolkit: Python Tools for Convenient, Reproducible, and Open Polar Science. 6502 - Ou Ku, Fakhereh Alidoost, Xu Shan, Pranav Chandramouli, Sonja Georgievska, Meiert W. Grootes, Susan C. Steele-Dunne:
MOTrainer: Distributed Measurement Operator Trainer for Data Assimilation Applications. 6591 - Sujay Shankar, Michael Gully-Santiago, Caroline V. Morley, Jiayi Cao, Kyle Kaplan, Karina Kimani-Stewart, Diana Gonzalez-Argúeta:
gollum: An intuitive programmatic and visual interface for precomputed synthetic spectral model grids. 6601 - Stephen Akinremi, Islam Fadel, Mark van der Meijde:
rfsed: Receiver function analysis and dealing with sediment effects. 6612 - Kensworth Subratie, Renato Figueiredo:
EdgeVPN.io: Seamless Software-defined Layer 2 Virtual Networking for Edge Computing. 6638 - Zeke Marshall, Simon M. Smart, Colin Harrower, Rob Marrs:
RMAVIS v1.0: a Shiny application for the analysis of vegetation survey data and assignment to GB NVC communities. 6682 - Colm Duffy, Daniel Henn, Remi Prudhomme, David Styles:
GOBLIN Lite: A National Land Balance Model for Assessment of Climate Mitigation Pathways for Ireland. 6732 - Tadej Lahovnik, Saso Karakatic:
GATree: Evolutionary decision tree classifier in Python. 6748 - Emiko Soroka, Mykel J. Kochenderfer, Sanjay Lall:
Satisfiability.jl: Satisfiability Modulo Theories in Julia. 6757 - Florian Kotthoff, Christoph Muschner, Deniz Tepe, Guido Pleßmann, Ludwig Hülk:
open-mastr: A Python Package to Download and Process the German Energy Registry Marktstammdatenregister. 6758 - Steven E. Hahn, Miroslav Stoyanov, Stefan Schnake, Eirik Endeve, David L. Green, Mark R. Cianciosa, Eduardo F. D'Azevedo, Wael R. Elwasif, Coleman Kendrick, Hao Lau, M. Graham Lopez, Adam McDaniel, B. Tyler McDaniel, Lin Mu, Timothy Reed Younkin, Hugo Brunie, Nestor Demeure, Cory D. Hauck:
ASGarD: Adaptive Sparse Grid Discretization. 6766 - Carlson Moses Büth, Anastassia Vybornova, Michael Szell:
superblockify: A Python Package for Automated Generation, Visualization, and Analysis of Potential Superblocks in Cities. 6798 - Pau Cabaneros Lopez:
chemotools: A Python Package that Integrates Chemometrics and scikit-learn. 6802 - Loïc Dutrieux, Jonas Viehweger:
nrt: operational monitoring of satellite image time-series in Python. 6815 - David Grant, Hannah Wakeford:
ExoTiC-LD: thirty seconds to stellar limb-darkening coefficients. 6816 - Karl N. Kappler, Jared R. Peacock, Gary D. Egbert, Andrew Frassetto, Lindsey J. Heagy, Anna Kelbert, Laura Keyson, Douglas Oldenburg, Timothy Ronan, Justin Sweet:
Aurora: An open-source Python implementation of the EMTF package for magnetotelluric data processing using MTH5 and mt_metadata. 6832 - Ashley J. Barnes, Navid C. Constantinou, Angus H. Gibson, Andrew E. Kiss, Chris Chapman, John Reilly, Dhruv Bhagtani, Luwei Yang:
regional-mom6: A Python package for automatic generation of regional configurations for the Modular Ocean Model 6. 6857 - William Rosenbaum, Pär Larsson:
Fraggler: A Python Package and CLI Tool for Automated Fragment Analysis. 6869 - Sun Yong Kwon, Eric Thibodeau, Alex Plotkowski, Ying Yang:
Equilipy: a python package for calculating phase equilibria. 6875 - Patrick Coleman, Peter William Hogg, Tristan Dellazizzo Toth, Kurt Haas:
PyNeuroTrace - Python code for neural activity time series. 6877 - Aadya A. Chinubhai:
ChainoPy: A Python Library for Discrete Time Markov Chain Based Stochastic Analysis. 6880 - Muhammad Zeeshan Khalid, Sverre M. Selbach:
DWBuilder: A code to generate ferroelectric/ferroelastic domain walls and multi-material atomic interface structures. 6895 - Michael Radica:
exoTEDRF: An EXOplanet Transit and Eclipse Data Reduction Framework. 6898 - M. P. van der Schelling, Bernardo P. Ferreira, Miguel A. Bessa:
f3dasm: Framework for Data-Driven Design and Analysis of Structures and Materials. 6912 - Kenji Koide:
small_gicp: Efficient and parallel algorithms for point cloud registration. 6948 - Aidan Sun:
WhaleConnect: A General-Purpose, Cross-Platform Network Communication Application. 6964 - Damir Akchurin:
Fortuna.jl: Structural and System Reliability Analysis in Julia. 6967 - Ben Cassese, Justin Vega, Tiger Lu, Malena Rice, Avishi Poddar, David Kipping:
squishyplanet: modeling transits of non-spherical exoplanets in JAX. 6972 - Benjamin J. M. Tremblay:
universalmotif: An R package for biological motif analysis. 7012 - Benjamin B. Ye, Pierre J. Walker, Zhen-Gang Wang:
MDCraft: A Python assistant for performing and analyzing molecular dynamics simulations of soft matter systems. 7013 - Karl D. Gordon:
dust_extinction: Interstellar Dust Extinction Models. 7023 - Bingqing Liu, Qiusheng Wu:
HyperCoast: A Python Package for Visualizing and Analyzing Hyperspectral Data in Coastal Environments. 7025 - Anil Tuncel, Werner Van Geit, Mike Gevaert, Benjamin Torben-Nielsen, Darshan Mandge, Ilkan Kiliç, Aurélien Jaquier, Eilif B. Müller, Lida Kanari, Henry Markram:
BlueCelluLab: Biologically Detailed Neural Network Experimentation API. 7026 - Micha Silver, Ron Beiden, Zhe Dong, Natalya Panov, Arnon Karnieli:
rOPTRAM: Deriving Soil Moisture from Satellite Imagery in R. 7086
Volume 9, Number 101, 2024
- Isaac Virshup, Sergei Rybakov, Fabian J. Theis, Philipp Angerer, F. Alexander Wolf:
anndata: Access and store annotated data matrices. 4371 - Martin Beseda, Silvie Illésová, Saad Yalouz, Bruno Senjean:
State-Averaged Orbital-Optimized VQE: A quantum algorithm for the democratic description of ground and excited electronic states. 6036 - Rosie Wood, Kasra Hosseini, Kalle Westerling, Andrew Smith, Kaspar Beelen, Daniel C. S. Wilson, Katherine McDonough:
MapReader: Open software for the visual analysis of maps. 6434 - Margaux Mouchene, Renaud Blanch, Erwan Pathier, Romain Montel, Franck Thollard:
InsarViz: An open source Python package for the interactive visualization of satellite SAR interferometry data. 6440 - Jacob A. Long:
jtools: Analysis and Presentation of Social Scientific Data. 6610 - Menno R. T. Fraters, Magali I. Billen, Rene Gassmöller, Arushi Saxena, Timo Heister, Haoyuan Li, Daniel Douglas, Juliane Dannberg, Wolfgang Bangerth, Yijun Wang:
The Geodynamic World Builder: A planetary structure creator for the geosciences. 6671 - Rory Chen, Vibeke S. Catts, Ashleigh Vella, Juan Carlo San Jose, Sarah Bauermeister, Joshua Bauermeister, Emma Squires, Simon Thompson, John Gallacher, Perminder S. Sachdev:
DataRepExp: a R shiny Application that makes Data FAIR for Data Repositories. 6693 - C. T. Kelley:
MultiPrecisionArrays.jl: A Julia package for iterative refinement. 6698 - Russell J. Garwood, Alan R. T. Spencer, Charles T. M. Bates, Leah M. Callender-Crowe, Frances S. Dunn, Thomas J. D. Halliday, Joseph N. Keating, Nicolás Mongiardino Koch, Luke A. Parry, Robert S. Sansom, Thomas J. Smith, Mark D. Sutton, Thomas Vanteghem:
TREvoSim v3: An individual based simulation for generating trees and character data. 6722 - Judith N. Claassen, Elco E. Koks, Marleen C. de Ruiter, Philip Ward, Wiebke S. Jäger:
VineCopulas: an open-source Python package for vine copula modelling. 6728 - Elif Fidan Acar, Martin Lysy, Alan Kuchinsky:
LocalCop: An R package for local likelihood inference for conditional copulas. 6744 - L. W. Raming, Enrique R. Vivoni, Giuseppe Mascaro, Charles J. Cederstrom, A. Ko, Adam P. Schreiner-McGraw, Carlos Lizarraga-Celaya:
tRIBS v5.2: A multi-resolution, parallel platform for tributary hydrology in forest applications. 6747 - Sarah Blunt, Jason Jinfei Wang, Lea Hirsch, Roberto Tejada, Vighnesh Nagpal, Tirth Dharmesh Surti, Sofia Covarrubias, Thea McKenna, Rodrigo Ferrer Chávez, Jorge Llop-Sayson, Mireya Arora, Amanda Chavez, Devin Cody, Saanika Choudhary, Adam J. R. W. Smith, William Balmer, Tomas Stolker, Hannah Gallamore, Clarissa R. Do Ó, Eric L. Nielsen, Robert J. De Rosa:
orbitize! v3: Orbit fitting for the High-contrast Imaging Community. 6756 - Rui Ying:
cgeniepy: A Python package for analysing cGENIE Earth System Model output. 6762 - Thurston Brevett:
QUPS: A MATLAB Toolbox for Rapid Prototyping of Ultrasound Beamforming and Imaging Techniques. 6772 - Steve Martin:
piar: Price Index Aggregation in R. 6781 - Matteo Delucchi, Jonas I. Liechti, Georg Ralph Spinner, Reinhard Furrer:
Additive Bayesian Networks. 6822 - Alessandro Gerada, Nicholas Harper, Alex Howard, William Hope:
AIgarMIC: a Python package for automated interpretation of agar dilution minimum inhibitory concentration assays. 6826 - David Pagnon, Hunmin Kim:
Sports2D: Compute 2D human pose and angles from a video or a webcam. 6849 - Joseph S. Wirth, Lee S. Katz, Grant M. Williams, Jessica C. Chen:
primerForge: a Python program for identifying primer pairs capable of distinguishing groups of genomes from each other. 6850 - Thibault Malou, Simon Labarthe:
Pherosensor-toolbox: a Python package for Biology-Informed Data Assimilation. 6863 - Jingxuan Yang, Juan Alday, Patrick Irwin:
NEMESISPY: A Python package for simulating and retrieving exoplanetary spectra. 6874 - Volkan Kumtepeli, Rebecca Perriment, David A. Howey:
DTW-C++: Fast dynamic time warping and clustering of time series data. 6881 - Vincent Auriau, Ali Aouad, Antoine Désir, Emmanuel Malherbe:
Choice-Learn: Large-scale choice modeling for operational contexts through the lens of machine learning. 6899 - Miriam Kopperstad Wolff, Sam Royston, Rune Volden:
GluPredKit: A Python Package for Blood Glucose Prediction and Evaluation. 6904 - Ava Thrasher, Michael Krause, Sébastien Henry, Michela Mancini, Priyal Soni, John A. Christian:
SONIC: Software for Optical Navigation and Instrument Calibration. 6916 - Sathvik Bhagavan, Bart de Koning, Shubham Maddhashiya, Christopher Rackauckas:
DataInterpolations.jl: Fast Interpolations of 1D data. 6917 - Luke Duttweiler, Shruthi Mahalingaiah, Brent A. Coull:
skipTrack: An R package for Identifying Skips in Self-Tracked Mobile Menstrual Cycle Data. 6928 - Zhiyi Wu, David L. Dotson, Irfan Alibay, Bryce K. Allen, Mohammad Soroush Barhaghi, Jérôme Hénin, Thomas T. Joseph, Ian M. Kenney, Hyungro Lee, Haoxi Li, Victoria T. Lim, Shuai Liu, Domenico Marson, Pascal T. Merz, Alexander Schlaich, David L. Mobley, Michael R. Shirts, Oliver Beckstein:
alchemlyb: the simple alchemistry library. 6934 - Matthew Andres Moreno, Mark T. Holder, Jeet Sukumaran:
DendroPy 5: a mature Python library for phylogenetic computing. 6943 - Thomas Storek, Junsong Du, Sebastian Blechmann, Rita Streblow, Dirk Müller:
FiLiP: A python software development kit (SDK) for accelerating the development of services based on FIWARE IoT platform. 6953 - Sidi Wang, Fang Fang, Roy Tamura, Thomas Braun, Kelley M. Kidwell:
snSMART: An R Package for Small Sample, Sequential, Multiple Assignment, Randomized Trial Data Analysis. 6971 - Joseph A. Ranalli, William Hobbs:
SolarSpatialTools: A Python package for spatial solar energy analyses. 6984 - Petros Liakopoulos, Julien Massonnet, Jonatan Bonjour, Medya Tekes Mizrakli, Simon Graham, Michel A. Cuendet, Amanda H. Seipel, Olivier Michielin, Doron Merkler, Andrew Janowczyk:
HoverFast: an accurate, high-throughput, clinically deployable nuclear segmentation tool for brightfield digital pathology images. 7022 - Anna Graff, Marc Lischka, Taras Zakharko, Reinhard Furrer, Balthasar Bickel:
densify: An R package to reduce empty cells in data frames of typological linguistic data. 7024 - Nathanael Bosch:
ProbNumDiffEq.jl: Probabilistic Numerical Solvers for Ordinary Differential Equations in Julia. 7048 - Frédéric Goualard:
MicroFloatingPoints.jl: providing very small IEEE 754-compliant floating-point types. 7050 - Fritz Lekschas, Trevor Manz:
Jupyter Scatter: Interactive Exploration of Large-Scale Datasets. 7059 - Anthony Baire, Pierre Marijon, Francesco Andreace, Pierre Peterlongo:
Back to sequences: Find the origin of k-mers. 7066 - Gerhard Bräunlich, Shashank Saxena, Manuel Weberndorfer, Miguel Spinola, Prateek Gupta, Dennis M. Kochmann:
AQCNES: A Quasi-Continuum Non-Equilibrium Solver. 7068 - Patrick Quéméré, Thomas David:
PyStack3D: A python package for fast image stack correction. 7079 - Danilo Couto de Souza, Pedro Leite da Silva Dias, Matheus Bonjour Laviola da Silva, Ricardo Saraiva de Camargo:
LorenzCycleToolkit: A Comprehensive Python Tool for Analyzing Atmospheric Energy Cycles. 7139 - Joan Maspons:
osmapiR: An 'OpenStreetMap API' implementation for R. 7151 - Daniel J. Vandenheuvel:
DelaunayTriangulation.jl: A Julia package for Delaunay triangulations and Voronoi tessellations in the plane. 7174 - Evan Kiefl:
Pooltool: A Python package for realistic billiards simulation. 7301
Volume 9, Number 102, 2024
- Jackson Barr, Joschka Birk, Maxence Draguet, Stefano Franchellucci, Alexander Froch, Philipp Gadow, Daniel Hay Guest, Manuel Guth, Nicole Michelle Hartman, Michael Kagan, Osama Karkout, Dmitrii Kobylianskii, Ivan Oleksiyuk, Nikita Ivvan Pond, Frederic Renner, Sebastien Rettie, Victor Hugo Ruelas Rivera, Tomke Schröer, Martino Tanasini, Samuel Van Stroud, Janik Von Ahnen:
Umami: A Python toolkit for jet flavour tagging. 5833 - Jonas Schulte:
IWOPY: Fraunhofer IWES optimization tools in Python. 6014 - Marc E. Canby:
LinguiPhyR: A Package for Linguistic Phylogenetic Analysis in R. 6201 - Adrien C. R. Thob, Robyn E. Sanderson, Andrew P. Eden, Farnik Nikakhtar, Nondh Panithanpaisal, Nicolás Garavito-Camargo, Sanjib Sharma:
Generating synthetic star catalogs from simulated data for next-gen observatories with py-ananke. 6234 - Wenjie Li, Haoze Li, Qifan Song, Jean Honorio:
PyXAB - A Python Library for \mathcal{X}-Armed Bandit and Online Blackbox Optimization Algorithms. 6507 - Changseok Lee:
Statmanager-kr: A User-friendly Statistical Package for Python in Pandas. 6642 - Willy Fitra Hendria, Paul Gavrikov:
VisualTorch: Streamlining Visualization for PyTorch Neural Network Architectures. 6678 - Gael Forget:
MITgcm.jl: a Julia Interface to the MITgcm. 6710 - Romain Poletti, Lorenzo Schena, Davide Ninni, Miguel A. Mendez:
MODULO: A Python toolbox for data-driven modal decomposition. 6753 - Tina Wunderlich:
MultichannelGPR: A MATLAB tool for Ground Penetrating Radar data processing. 6767 - Konstantinos I. Chatzilygeroudis, Dionis Totsila, Jean-Baptiste Mouret:
RobotDART: a versatile robot simulator for robotics and machine learning researchers. 6771 - Frédéric Dux:
lightcurver: A Python Pipeline for Precise Photometry of Multiple-Epoch Wide-Field Images. 6775 - Jean Mainguy, Claire Hoede:
Binette: a fast and accurate bin refinement tool to construct high quality Metagenome Assembled Genomes. 6782 - David T. Kerns, Tosiron Adegbija:
An Open-Source Tool for Generating Domain-Specific Accelerators for Resource-Constrained Computing. 6825 - Alexey Izmailov, Matthew Meeker, Georgios Deskos, Brendan Keith:
DRDMannTurb: A Python package for scalable, data-driven synthetic turbulence. 6838 - Natacha Galmiche:
PyCVI: A Python package for internal Cluster Validity Indices, compatible with time-series data. 6841 - Masoud Abedinifar, Julius Welzel, Clint Hansen, Walter Maetzler, Robbin Romijnders:
KielMAT: Kiel Motion Analysis Toolbox - An Open-Source Python Toolbox for Analyzing Neurological Motion Data from Various Recording Modalities. 6842 - Daylin Morgan, Amy Brock:
Pycashier: cash in on DNA barcode tags. 6891 - Arnav Agrawal, Ryan J. MacDonald:
Cthulhu: An Open Source Molecular and Atomic Cross Section Computation Code for Substellar Atmospheres. 6894 - Aneesh P. Naik, Michael S. Petersen:
lintsampler: Easy random sampling via linear interpolation. 6906 - Joseph D. Carpinelli:
EphemerisSources.jl: Idiomatic Ephemeris Sourcing and Parsing in Julia. 6914 - Lily Clements:
carbonr: An R Package for Estimating Carbon-Equivalent Emissions. 6932 - Trevor Manz, Nezar Abdennur, Nils Gehlenborg:
anywidget: reusable widgets for interactive analysis and visualization in computational notebooks. 6939 - Aurélien Babarit, Moran Charlou:
CN-AeroModels: A C++ implementation of aerodynamic models for wind propulsion systems of cargo ships. 6940 - Alexandru Andrei Vasile, Matthew Peres Tino, Yuvraj Aseri, Nasser Mohieddin Abukhdeir:
OpenCCM: An Open-Source Continuous Compartmental Modelling Package. 6963 - Randolph R. Settgast, Ryan M. Aronson, Julien R. Besset, Andrea Borio, Quan M. Bui, Thomas J. Byer, Nicola Castelletto, Aurélien Citrain, Benjamin C. Corbett, James Corbett, Philippe Cordier, Matthias A. Cremon, Cameron M. Crook, Matteo Cusini, Fan Fei, Stefano Frambati, Jacques Franc, Andrea Franceschini, Matteo Frigo, Pengcheng Fu, Thomas Gazzola, Herve Gross, François P. Hamon, Brian M. Han, Yue Hao, Rasim Hasanzade, Michael Homel, Jian Huang, Tao Jin, Isaac Ju, Dickson Kachuma, Mohammad Karimi-Fard, Taeho Kim, Sergey Klevtsov, Alexandre Lapene, Victor Antonio Paludetto Magri, Antoine Mazuyer, Mamadou N'diaye, Daniel Osei-Kuffuor, Stefan Povolny, Guotong Ren, Shabnam J. Semnani, Christopher S. Sherman, Melvin Rey, Hamdi A. Tchelepi, William R. Tobin, Pavel Tomin, Lionel Untereiner, Arturo Vargas, Sohail Waziri, Xianhuan Wen, Joshua A. White, Hui Wu:
GEOS: A performance portable multi-physics simulation framework for subsurface applications. 6973 - Bruno Turcksin, Stephen Dewitt:
Adamantine 1.0: A Thermomechanical Simulator for Additive Manufacturing. 7017 - Doriann Blain, Paul Mollière, Evert Nasedkin:
SpectralModel: a high-resolution framework for petitRADTRANS 3. 7028 - Chris Proctor:
A tool for qualitative data analysis designed to support computational thinking. 7031 - Henrik Finsberg, Johan Hake:
gotranx: General ODE translator. 7063 - Tim Brauckhoff, Coline Kieffer, Stefan Rödiger:
biopixR: Extracting Insights from Biological Images. 7074 - Lorenzo Van Muñoz, Sophie Beck, Jason Kaye:
AutoBZ.jl: Automatic, adaptive Brillouin zone integration using Wannier interpolation. 7080 - Mgcini Keith Phuthi, Emil Annevelink, Venkatasubramanian Viswanathan:
ASIMTools: A lightweight framework for scalable and reproducible atomic simulations. 7085 - Michael C. Denes, Erik van Sebille:
plasticparcels: A python package for marine plastic dispersal simulations and parameterisation development using parcels. 7094 - Jens Sager, Rico Schrage:
Mango.jl: A Julia-Based Multi-Agent Simulation Framework. 7098 - Jakob Stegmann, Fabio Antonini:
TSE: A triple stellar evolution code. 7102 - Reto Stauffer, Achim Zeileis:
colorspace: A Python Toolbox for Manipulating and Assessing Colors and Palettes. 7120 - Jabir Ali Ouassou:
Bodge: Python package for efficient tight-binding modeling of superconducting nanostructures. 7134 - Thomas R. Chudley, Ian M. Howat:
pDEMtools: conveniently search, download, and process ArcticDEM and REMA products. 7149 - Donald Prible:
Caliscope: GUI Based Multicamera Calibration and Motion Tracking. 7155 - Jordi Manyer, Alberto F. Martín, Santiago Badia:
GridapSolvers.jl: Scalable multiphysics finite element solvers in Julia. 7162 - Alexander Barbie, Wilhelm Hasselbring:
ARCHES PiCar-X: Software for Digital Twin Research. 7179 - Cyril Richard, Vincent Hourdin, Cécile Melis, Adrian Knagg-Baugh:
Siril: An Advanced Tool for Astronomical Image Processing. 7242 - Sierra V. Brown, Michael Clair, Chase Million, Sabrina A. Curtis, K.-Michael Aye, Zack Weinberg:
PDR: The Planetary Data Reader. 7256 - Dominic Chang:
Krang: Kerr Raytracer for Analytic Null Geodesics. 7273 - Justin Bousquin, Cristina A. Mullin:
harmonize-wq: Standardize, clean and wrangle Water Quality Portal data into more analytic-ready formats. 7305 - Matteo Bachetti, Daniela Huppenkothen, Abigail Stevens, John Swinbank, Guglielmo Mastroserio, Matteo Lucchini, Eleonora Veronica Lai, Johannes Buchner, Amogh Desai, Gaurav Joshi, Francesco Pisanu, Sri Guru Datta Pisupati, Swapnil Sharma, Mihir Tripathi, Dhruv Vats:
Stingray 2: A fast and modern Python library for spectral timing. 7389
Volume 9, Number 103, 2024
- Lauren D. Liao, Samuel D. Pimentel:
jointVIP: Prioritizing variables in observational study design with joint variable importance plot in R. 6093 - Hangzhi Guo, Xinchang Xiong, Wenbo Zhang, Amulya Yadav:
ReLax: Efficient and Scalable Recourse Explanation Benchmarking using JAX. 6567 - Jonathan B. Martin, Heng Sun, Madison Albert, Kevin M. Johnson, William A. Grissom:
PulPy: A Python Toolkit for MRI RF and Gradient Pulse Design. 6586 - Adam M. Krajewski, Arindam Debnath, Wesley F. Reinhart, Allison M. Beese, Zi-Kui Liu:
nimCSO: A Nim package for Compositional Space Optimization. 6731 - Boris J. P. Kaus, Marcel Thielmann, Pascal Aellig, Albert de Montserrat, Luca de Siena, Jacob Frasukiewicz, Lukas Fuchs, Andrea Piccolo, Hendrik Ranocha, Nicolas Riel, Christian Schuler, Arne Spang, Tatjana Weiler:
GeophysicalModelGenerator.jl: A Julia package to visualise geoscientific data and create numerical model setups. 6763 - David Loiseaux, Hannah Schreiber:
multipers : Multiparameter Persistence for Machine Learning. 6773 - Jonah M. Miller, Daniel Holladay, Jeffrey H. Peterson, Christopher M. Mauney, Richard Berger, Anna Pietarila Graham, Karen C. Tsai, Brandon Barker, Alexander Holas, Ann E. Mattsson, Mariam Gogilashvili, Joshua C. Dolence, Chad D. Meyer, Sriram Swaminarayan, Christoph Junghans:
Singularity-EOS: Performance Portable Equations of State and Mixed Cell Closures. 6805 - Meixi Chen, Martin Lysy, Reza Ramezan:
SpatialGEV: Fast Bayesian inference for spatial extreme value models in R. 6878 - Shaun David Brocus Fell, Lavinia Heisenberg:
GRBoondi: A code for evolving Generalized Proca theories on arbitrary backgrounds. 6888 - Roy A. Ruddle, Layik Hama, P. Wochner, O. T. Strickson:
SetVis: Visualizing Large Numbers of Sets and Intersections. 6925 - Scott J. Staniewicz, Sara Mirzaee, Geoffrey Gunter, Talib Oliver-Cabrera, Emre Havazli, Heresh Fattahi:
Dolphin: A Python package for large-scale InSAR PS/DS processing. 6997 - Cody R. Drisko, Hemanta Bhattarai, Christopher J. Fennell, Kelsey M. Stocker, Charles F. Vardeman II, J. Daniel Gezelter:
OpenMD: A parallel molecular dynamics engine for complex systems and interfaces. 7004 - Sungjae Park, Yun-Jung Ku, Nan Mu, Vahid Daneshmand, R. Quinn Thomas, Cayelan C. Carey, Renato J. O. Figueiredo:
FaaSr: R Package for Function-as-a-Service Cloud Computing. 7027 - André Artelt, Marios S. Kyriakou, Stelios G. Vrachimis, Demetrios G. Eliades, Barbara Hammer, Marios M. Polycarpou:
EPyT-Flow: A Toolkit for Generating Water Distribution Network Data. 7104 - Attila Bódi:
seismolab: A Python package for analyzing space-based observations of variable stars. 7118 - Hugo Ledoux:
startinpy: A Python library for modelling and processing 2.5D triangulated terrains. 7123 - Trey V. Wenger:
bayes_spec: A Bayesian Spectral Line Modeling Framework for Astrophysics. 7201 - Travis Thurber, Daniel Broman, Tian Zhou, Nathalie Voisin:
wmpy-power: A Python package for process-based regional hydropower simulation. 7225 - Timothy A. Smith, Stephen G. Penny, Jason A. Platt, Tse-Chun Chen:
xesn: Echo state networks powered by Xarray and Dask. 7286 - David A. Kelly, Ilaria Pia La Torre:
DiscreteEntropy.jl: Entropy Estimation of Discrete Random Variables with Julia. 7334 - Paul Taconet, Nicolas Moiroux:
modisfast: An R package for fast and efficient access to MODIS, VIIRS and GPM Earth Observation data. 7343 - Matteo Neri, Dishie Vinchhi, Christian Ferreyra, Thomas Robiglio, Onur Ates, Marlis Ontivero-Ortega, Andrea Brovelli, Daniele Marinazzo, Etienne Combrisson:
HOI: A Python toolbox for high-performance estimation of Higher-Order Interactions from multivariate data. 7360
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