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ORCIDJournal of Open Source Software, Volume 5
Volume 5, Number 45, January 2020
- Kai Alexander von Szadkowski, Simon Reichel
:
Phobos: A tool for creating complex robot models. 1326 - Lukasz Kaczmarczyk, Zahur Ullah, Karol Lewandowski, Xuan Meng, Xiao-Yi Zhou, Ignatios Athanasiadis, Hoang Nguyen, Christophe-Alexandre Chalons-Mouriesse, Euan Richardson, Euan Miur, Andrei G. Shvarts, Mebratu Wakeni, Chris J. Pearce:
MoFEM: An open source, parallel finite element library. 1441 - Wenyang Lyu, Shibabrat Naik, Stephen Wiggins:
UPOsHam: A Python package for computing unstable periodic orbits in two-degree-of-freedom Hamiltonian systems. 1684 - Albert Steppi, Benjamin M. Gyori, John A. Bachman:
Adeft: Acromine-based Disambiguation of Entities from Text with applications to the biomedical literature. 1708 - Lukas Geiger, Plumerai Team:
Larq: An Open-Source Library for Training Binarized Neural Networks. 1746 - Stephan Stock, Jonas Kemmer:
AliasFinder: A Python script to search for the true planetary frequency within radial velocity data. 1771 - Madicken Munk, Matthew J. Turk:
widgyts: Custom Jupyter Widgets for Interactive Data Exploration with yt. 1774 - Taylor B. Arnold, Lauren Tilton:
Distant Viewing Toolkit: A Python Package for the Analysis of Visual Culture. 1800 - Vítor S. Ramos:
SIHR: a MATLAB/GNU Octave toolbox for single image highlight removal. 1822 - Walter Torres, K. C. Bierlich:
MorphoMetriX: a photogrammetric measurement GUI for morphometric analysis of megafauna. 1825 - Stefano Bianchi:
fathon: A Python package for a fast computation of detrendend fluctuation analysis and related algorithms. 1828 - Jens Mortensen, Morten Gjerding, Kristian Thygesen:
MyQueue: Task and workflow scheduling system. 1844 - Swathi Sheshadri, Benjamin Dann, Timo Hueser, Hansjörg Scherberger:
3D reconstruction toolbox for behavior tracked with multiple cameras. 1849 - Benoît Combès:
miet: an R package for region of interest analysis from magnetic reasonance images. 1862 - Edward J. Oughton, Tom Russell:
cdcam: Cambridge Digital Communications Assessment Model. 1911 - Leonardo Uieda, Santiago Soler, Rémi Rampin, Hugo van Kemenade, Matthew J. Turk, Daniel Shapero, Anderson Banihirwe, John R. Leeman:
Pooch: A friend to fetch your data files. 1943 - Magnus Rahm, Paul Erhart:
WulffPack: A Python package for Wulff constructions. 1944 - Raul Laasner, Xiaochen Du, Aditya Tanikanti, Connor Clayton, Marco Govoni, Giulia Galli, Matti Ropo, Volker Blum:
MatD^3^: A Database and Online Presentation Package for Research Data Supporting Materials Discovery, Design, and Dissemination. 1945 - Roman Feldbauer, Thomas Rattei, Arthur Flexer:
scikit-hubness: Hubness Reduction and Approximate Neighbor Search. 1957 - Matheus Bernardelli de Moraes, André Leon S. Gradvohl:
MOAFS: A Massive Online Analysis library for feature selection in data streams. 1970 - Torben Tvedebrink, Mikkel Meyer Andersen, James Curran:
DNAtools: Tools for Analysing Forensic Genetic DNA Data. 1981 - Héloïse F. Stevance, J. J. Eldridge, Elizabeth Stanway:
Hoki: Making BPASS accessible through Python. 1987 - Michael Hartmann, Gert-Ludwig Ingold:
CaPS: Casimir Effect in the Plane-Sphere Geometry. 2011 - Auriel M. V. Fournier, Matthew Boone, Forrest R. Stevens, Emilio Bruna:
refsplitr: Author name disambiguation, author georeferencing, and mapping of coauthorship networks with Web of Science data. 2028 - Dominic J. Bennett, Hannes Hettling, Daniele Silvestro, Rutger A. Vos, Alexandre Antonelli:
outsider: Install and run programs, outside of R, inside of R. 2038
Volume 5, Number 46, February 2020
- Fidji Berio, Yann Bayle:
Scyland3D: Processing 3D landmarks. 1262 - Matthew K. Lau, Thomas F. J.-M. Pasquier, Margo I. Seltzer:
Rclean: A Tool for Writing Cleaner, More Transparent Code. 1312 - Jérémie Deray, Joan Solà:
Manif: A micro Lie theory library for state estimation in robotics applications. 1371 - Jatinder Sandhu, Anant Girdhar, Rakesh Ramakrishnan, R. D. Teja, Santanu Ghosh:
FEST-3D: Finite-volume Explicit STructured 3-Dimensional solver. 1555 - Diego Kiedanski, Daniel Kofman, José Horta:
PyMarket - A simple library for simulating markets in Python. 1591 - Sangkeun Lee, Jian Peng, Andrew Williams, Dongwon Shin:
ASCENDS: Advanced data SCiENce toolkit for Non-Data Scientists. 1656 - Kamran Javid:
Geometric nested sampling: sampling from distributions defined on non-trivial geometries. 1809 - Akash Nag:
MDL Suite: A language, generator and compiler for describing mazes. 1815 - Joshua Day, Hua Zhou:
OnlineStats.jl: A Julia package for statistics on data streams. 1816 - Jordan H. Creed, Travis A. Gerke, Anders Berglund:
MatSurv: Survival analysis and visualization in MATLAB. 1830 - Stuart Mumford, Nabil Freij, Steven Christe, Jack Ireland, Florian Mayer, V. Keith Hughitt, Albert J. Shih, Daniel Ryan, Simon Liedtke, David Pérez-Suárez, Pritish Chakraborty, Vishnunarayan K, Andrew Inglis, Punyaslok Pattnaik, Brigitta M. Sipocz, Rishabh Sharma, Andrew Leonard, David Stansby, Russell J. Hewett, Alex Hamilton, Laura Hayes, Asish Panda, Matt Earnshaw, Nitin Choudhary, Ankit Kumar, Prateek Chanda, Md. Akramul Haque, Michael Kirk, Michael Mueller, Sudarshan Konge, Rajul Srivastava, Yash Jain, Samuel Bennett, Ankit Baruah, Will T. Barnes, Michael Charlton, Shane A. Maloney, Nicky Chorley, Himanshu, Sanskar Modi, James Mason, Jose Rozo, Larry Manley, Agneet Chatterjee, John Evans, Michael Malocha, Monica G. Bobra, Sourav Ghosh, Dominik Stanczak, Ruben De Visscher, Shresth Verma, Ankit Agrawal, Dumindu Buddhika, Swapnil Sharma, Jongyeob Park, Matt Bates, Dhruv Goel, Garrison Taylor, Goran Cetusic, Jacob, Mateo Inchaurrandieta, Sally Dacie, Sanjeev Dubey, Deepankar Sharma, Erik Bray, Jai Rideout, Serge Zahniy, Tomas Meszaros, Abhigyan Bose, André Chicrala, Ankit, Chloé Guennou, Daniel D'avella, Daniel Williams, Jordan Ballew, Nick Murphy, Priyank Lodha, Thomas Robitaille, Yash Krishan, Andrew Hill, Arthur Eigenbrot, Benjamin Mampaey, Bernhard Wiedemann, Carlos Molina, Duygu Keskek, Ishtyaq Habib, Joseph Letts, Juanjo Bazán, Quinn Arbolante, Reid Gomillion, Yash Kothari, Yash Sharma, Abigail Stevens, Adrian M. Price-Whelan, Ambar Mehrotra, Arseniy Kustov, Brandon Stone, Trung Dang, Emmanuel Arias, Fionnlagh Dover, Freek Verstringe, Gulshan Kumar, Harsh Mathur, Igor Babuschkin, Jaylen Wimbish, Juan Buitrago-Casas, Kalpesh Krishna, Kaustubh Hiware, Manas Mangaonkar, Matthew Mendero, Mickaël Schoentgen, Norbert Gyenge, Ole Streicher, Rajasekhar Mekala, Rishabh Mishra, Shashank Srikanth, Sarthak Jain, Tannmay Yadav, Tessa Wilkinson, Tiago Pereira, Yudhik Agrawal, Jamescalixto, Yasintoda, Sophie Murray:
SunPy: A Python package for Solar Physics. 1832 - Giuseppe Morello, Antonio Claret, Marine Martin-Lagarde, Christophe Cossou, Angelos Tsiara, Pierre-Olivier Lagage:
ExoTETHyS: Tools for Exoplanetary Transits around host stars. 1834 - Mauricio Vargas:
Economiccomplexity: Computational Methods for Economic Complexity. 1866 - Johannes Titz:
passt: An R implementation of the Probability Associator Time (PASS-T) model. 1900 - Kipngeno Kirui, Alois Pichler, Georg Pflug:
ScenTrees.jl: A Julia Package for Generating Scenario Trees and Scenario Lattices for Multistage Stochastic Programming. 1912 - Feiyu Chen, David Sondak, Pavlos Protopapas, Marios Mattheakis, Shuheng Liu, Devansh Agarwal, Marco Di Giovanni:
NeuroDiffEq: A Python package for solving differential equations with neural networks. 1931 - David Litwin, Gregory E. Tucker, Katherine R. Barnhart, Ciaran Harman:
GroundwaterDupuitPercolator: A Landlab component for groundwater flow. 1935 - Ayush Kaushal, Lyndon White, Mike Innes, Rohit Kumar:
WordTokenizers.jl: Basic tools for tokenizing natural language in Julia. 1956 - Titipat Achakulvisut, Daniel E. Acuna, Konrad P. Körding:
Pubmed Parser: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset XML Dataset. 1979 - Tiago Tresoldi:
DAFSA: a Python library for Deterministic Acyclic Finite State Automata. 1986 - Katherine Eaton:
NCBImeta: efficient and comprehensive metadata retrieval from NCBI databases. 1990 - Oliver Schwengers, Torsten Hain, Trinad Chakraborty, Alexander Goesmann:
ReferenceSeeker: rapid determination of appropriate reference genomes. 1994 - Ellert van der Velden:
CMasher: Scientific colormaps for making accessible, informative and 'cmashing' plots. 2004 - Chia Chang, Christopher Körber, André Walker-Loud:
EspressoDB: A scientific database for managing high-performance computing workflows. 2007 - Iago Lemos, Antonio Lima, Marcus Duarte:
thresholdmodeling: A Python package for modeling excesses over a threshold using the Peak-Over-Threshold Method and the Generalized Pareto Distribution. 2013 - Shalin Shah, Abhishek Kumar Dubey, John H. Reif:
ExTemp: A computational and image-processing suite for extracting temporal barcodes. 2026
Volume 5, Number 46, February 2019
- Nikolai Sellereite, Martin Jullum:
shapr: An R-package for explaining machine learning models with dependence-aware Shapley values. 2027
Volume 5, Number 46, February 2020
- Tyler K. Chafin:
FGTpartitioner: A rapid method for parsimonious delimitation of ancestry breakpoints in large genome-wide SNP datasets. 2030 - Andrew Annex, Ben Pearson, Benoît Seignovert, Brian Carcich, Helge Eichhorn, Jesse Mapel, Johan von Forstner, Jonathan McAuliffe, Jorge del Rio, Kristin Berry, K.-Michael Aye, Marcel Stefko, Miguel de Val-Borro, Shankar Kulumani, Shinya Murakami:
SpiceyPy: a Pythonic Wrapper for the SPICE Toolkit. 2050 - Nathan Lyons, James Albert, Nicole Gasparini:
SpeciesEvolver: A Landlab component to evolve life in simulated landscapes. 2066 - Aaron Wolen, Chris Hartgerink, Ryan Hafen, Brian Richards, Courtney Soderberg, Timothy York:
osfr: An R Interface to the Open Science Framework. 2071 - Pascal Stark, Lorenz K. Müller:
COLNA: A Python Package to Analyze Complex, Linear Networks. 2073 - Philippe Boileau, Nima S. Hejazi, Sandrine Dudoit:
scPCA: A toolbox for sparse contrastive principal component analysis in R. 2079
Volume 5, Number 47, March 2020
- Madhavun Candadai, Eduardo J. Izquierdo:
infotheory: A C++/Python package for multivariate information theoretic analysis. 1609 - Jonas Radtke, Guilherme Bertoldo, Carlos Marchi:
DEPP - Differential Evolution Parallel Program. 1701 - Thomas Pak, Ruth E. Baker, Joe Pitt-Francis:
Pakman: a modular, efficient and portable tool for approximate Bayesian inference. 1716 - John Mansour, Julian Giordani, Louis Moresi, Romain Beucher, Owen Kaluza, Mirko Velic, Rebecca Farrington, Steve Quenette, Adam Beall:
Underworld2: Python Geodynamics Modelling for Desktop, HPC and Cloud. 1797 - Fergus R. Cooper, Ruth E. Baker, Miguel O. Bernabeu, Rafel Bordas, Louise Bowler, Alfonso Bueno-Orovio, Helen M. Byrne, Valentina Carapella, Louie Cardone-Noott, Jonathan Cooper, Sara Dutta, Benjamin D. Evans, Alexander G. Fletcher, James A. Grogan, Wenxian Guo, Daniel G. Harvey, Maurice Hendrix, David Kay, Jochen Kursawe, Philip K. Maini, Beth McMillan, Gary R. Mirams, James M. Osborne, Pras Pathmanathan, Joe Pitt-Francis, Martin Robinson, Blanca Rodríguez, Raymond J. Spiteri, David Gavaghan:
Chaste: Cancer, Heart and Soft Tissue Environment. 1848 - Stefanie Lumnitz, Daniel Arribas-Bel, Renan Xavier Cortes, James D. Gaboardi, Verena C. Griess, Wei Kang, Taylor Oshan, Levi John Wolf, Sergio J. Rey:
splot - visual analytics for spatial statistics. 1882 - Jiaxin Wang, Tess Jaffe, Torsten A. Ensslin, Joe Taylor:
hammurabi X: a C++ package for simulating Galactic emissions. 1889 - Christopher Desjardins, Okan Bulut:
profileR: An R package for profile analysis. 1941 - Mainak Jas, Titipat Achakulvisut, Aid Idrizovic, Daniel E. Acuna, Matthew Antalek, Vinícius Marques, Tommy Odland, Ravi Garg, Mayank Agrawal, Yu Umegaki, Peter Foley, Hugo Fernandes, Drew Harris, Beibin Li, Olivier Pieters, Scott Otterson, Giovanni De Toni, Chris C. Rodgers, Eva L. Dyer, Matti S. Hämäläinen, Konrad P. Körding, Pavan Ramkumar:
Pyglmnet: Python implementation of elastic-net regularized generalized linear models. 1959 - Phyllipe Lima, Eduardo Guerra, Paulo Meirelles:
Annotation Sniffer: A tool to Extract Code Annotations Metrics. 1960 - Andrew J. Quinn, Mark Hymers:
SAILS: Spectral Analysis In Linear Systems. 1982 - Mojtaba Sedigh Fazli, Marcus Hill, Andrew Durden, Rachel Mattson, Allyson T. Loy, Barbara Reaves, Abigail Courtney, Frederick D. Quinn, Chakra Chennubhotla, Shannon Quinn:
OrNet - a Python Toolkit to Model the Diffuse Structure of Organelles as Social Networks. 1983 - Malcolm Barrett, Joshua Millstein:
partition: A fast and flexible framework for data reduction in R. 1991 - Andrew Bennett, Joseph Hamman, Bart Nijssen:
MetSim: A Python package for estimation and disaggregation of meteorological data. 2042 - Andy Nowacki:
SeisModels.jl: A Julia package for models of the Earth's interior. 2043 - Aoife Hughes, Richard J. Morris, Melissa Tomkins:
PyEscape: A narrow escape problem simulator package for Python. 2072 - Sohrab Towfighi:
pyGOURGS - global optimization of n-ary tree representable problems using uniform random global search. 2074 - Matthew Moretz, Daniel Foster, John Weber, Rinty Chowdhury, Shah Rafique, Evan B. Goldstein, Somya D. Mohanty:
psi-collect: A Python module for post-storm image collection and cataloging. 2075 - Alan F. Rubin:
fqfa: A pure Python package for genomic sequence files. 2076 - Courtney Smith, Tristan Salles, Ana Vila-Concejo:
RADWave: Python code for ocean surface wave analysis by satellite radar altimeter. 2083 - Sunghyun Kim, Samantha Hood, Puck van Gerwen, Lucy D. Whalley, Aron Walsh:
CarrierCapture.jl: Anharmonic Carrier Capture. 2102 - Brett M. Morris:
fleck: Fast approximate light curves for starspot rotational modulation. 2103 - Roni Choudhury, Muratahan Aykol, Samuel Gratzl, Joseph H. Montoya, Jens S. Hummelshøj:
MaterialNet: A web-based graph explorer for materials science data. 2105 - Phil Snyder, Meghasyam Tummalacherla, Thanneer Malai Perumal, Larsson Omberg:
mhealthtools: A Modular R Package for Extracting Features from Mobile and Wearable Sensor Data. 2106 - Giovanni Birolo, Andrea Telatin:
covtobed: a simple and fast tool to extract coverage tracks from BAM files. 2119 - Samuel R. Hinton, Dillon Brout:
Pippin: A pipeline for supernova cosmology. 2122 - He Ma, Marco Govoni, Giulia Galli:
PyZFS: A Python package for first-principles calculations of zero-field splitting tensors. 2160
Volume 5, Number 48, April 2020
- Tom Eulenfeld:
rf: Receiver function calculation in seismology. 1808 - Shalin Shah:
JCOL: A Java package for solving the graph coloring problem. 1843 - Simon O'meara, Shuxuan Xu, David Topping, Gerard Capes, Douglas Lowe, M. Rami Alfarra, Gordon McFiggans:
PyCHAM: CHemistry with Aerosol Microphysics in Python. 1918 - Nicolas Karasiak:
Museo ToolBox: A Python library for remote sensing including a new way to handle rasters. 1978 - Thomas Helfer, Jérémy Bleyer, Tero Frondelius, Ivan Yashchuk, Thomas Nagel, Dmitri Naumov:
The MFrontGenericInterfaceSupport project. 2003 - Joshua W. Steer, Oliver Stocks, Jack Parsons, Peter R. Worsley, Alexander S. Dickinson:
ampscan: A lightweight Python package for shape analysis of prosthetics and orthotics. 2060 - J. Sebastian Paez, Michael Wendt, Nadia Lanman:
scTree: An R package to generate antibody-compatible classifiers from single-cell sequencing data. 2061 - Guilherme P. Castelão:
A Framework to Quality Control Oceanographic Data. 2063 - Raphael Timbó, Rodrigo Martins, Gabriel Bachmann, Flavio Rangel, Júlia Mota, Juliana Valério, Thiago G. Ritto:
ROSS - Rotordynamic Open Source Software. 2120 - Maximilian Rabe, Shravan Vasishth, Sven Hohenstein, Reinhold Kliegl, Daniel J. Schad:
hypr: An R package for hypothesis-driven contrast coding. 2134 - Simon Brugman, Ian Eaves:
Visions: An Open-Source Library for Semantic Data. 2145 - Travis Hesketh:
pygen-structures: A Python package to generate 3D molecular structures for simulations using the CHARMM forcefield. 2157 - David Zwicker:
py-pde: A Python package for solving partial differential equations. 2158 - Minnie Joo, Nicolás Schmidt, Sergio Béjar, Vineeta Yadav, Bumba Mukherjee:
BayesMFSurv: An R Package to Estimate Bayesian Split-Population Survival Models With (and Without) Misclassified Failure Events. 2164 - Henry Wilde, Vincent A. Knight, Jonathan W. Gillard:
Matching: A Python library for solving matching games. 2169 - Steffen Herbold:
Autorank: A Python package for automated ranking of classifiers. 2173
Volume 5, Number 49, May 2020
- David Torres Sanchez:
cspy: A Python package with a collection of algorithms for the (Resource) Constrained Shortest Path problem. 1655 - Kacper Sokol, Alexander Hepburn, Rafael Poyiadzi, Matthew Clifford, Raúl Santos-Rodríguez, Peter A. Flach:
FAT Forensics: A Python Toolbox for Implementing and Deploying Fairness, Accountability and Transparency Algorithms in Predictive Systems. 1904 - Kiret Dhindsa, Oliver Cook, Thomas Mudway, Areeb Khawaja, Ron Harwood, Ranil Sonnadara:
LFSpy: A Python Implementation of Local Feature Selection for Data Classification with scikit-learn Compatibility. 1958 - Yuriy Babin:
Recan: Python tool for analysis of recombination events in viral genomes. 2014 - Jason Cory Brunson:
ggalluvial: Layered Grammar for Alluvial Plots. 2017 - Ryan P. McGehee, Dennis C. Flanagan, Puneet Srivastava:
WEPPCLIFF: A command-line tool to process climate inputs for soil loss models. 2029 - Nicolas Renaud, Cunliang Geng:
The pdb2sql Python Package: Parsing, Manipulation and Analysis of PDB Files Using SQL Queries. 2077 - Peter M. C. Harrison:
psychTestR: An R package for designing and conducting behavioural psychological experiments. 2088 - Nora Eisner, Chris J. Lintott, Suzanne Aigrain:
LATTE: Lightcurve Analysis Tool for Transiting Exoplanets. 2101 - Brian de Silva, Kathleen P. Champion, Markus Quade, Jean-Christophe Loiseau, J. Nathan Kutz, Steven L. Brunton:
PySINDy: A Python package for the sparse identification of nonlinear dynamical systems from data. 2104 - Johannes Titz:
mimosa: A Modern Graphical User Interface for 2-level Mixed Models. 2116 - Francesco Witte, Ilja Tuschy:
TESPy: Thermal Engineering Systems in Python. 2178 - Andrew Van Benschoten, Austin Ouyang, Francisco Bischoff, Tyler Marrs:
MPA: a novel cross-language API for time series analysis. 2179
Volume 5, Number 50, June 2020
- Samuel Letellier-Duchesne, Louis Leroy:
archetypal: A Python package for collecting, simulating, converting and analyzing building archetypes. 1833 - Kaashif Hymabaccus, Dmitrii V. Pasechnik:
RepnDecomp: A GAP package for decomposing linear representations of finite groups. 1835 - Silvana Ayala Pelaez, Chris Deline:
bifacial_radiance: a python package for modeling bifacial solar photovoltaic systems. 1865 - David Meyer, Robert Schoetter, Valéry Masson, Sue Grimmond:
Enhanced software and platform for the Town Energy Balance (TEB) model. 2008 - Maria Tsantaki, Daniel Andreasen, Guilherme Teixeira:
FASMA 2.0: A Python package for stellar parameters and chemical abundances. 2048 - Dillon Niederhut:
niacin: A Python package for text data enrichment. 2136 - João Teixeira:
taurenmd: A command-line interface for analysis of Molecular Dynamics simulations. 2175 - Andrew McCluskey, Tim Snow:
uravu: Making Bayesian modelling easy(er). 2214 - Morgan Williams, Louise Schoneveld, Yajing Mao, Jens Klump, Justin Gosses, Hayden Dalton, Adam Bath, Steve Barnes:
pyrolite: Python for geochemistry. 2314 - Sam Greenwood, Philip W. Livermore, Grace Cox:
Torsional Axisymmetric Core Oscillations Visualiser (TACO-VIS): A Python module for animating torsiona l wave data for fluid planetary cores. 1720
Volume 5, Number 51, July 2020
- Rhenan Bartels, Tiago Peçanha:
HRV: a Pythonic package for Heart Rate Variability Analysis. 1867 - Kenneth L. Ho:
FLAM: Fast Linear Algebra in MATLAB - Algorithms for Hierarchical Matrices. 1906 - Richard Gerum:
pylustrator: code generation for reproducible figures for publication. 1989 - Waseem Sheikh, Nadeem Sheikh:
Audiometry: A model-view-viewmodel (MVVM) application framework for hearing impairment diagnosis. 2016 - Donald Williams, Joris Mulder:
BGGM: Bayesian Gaussian Graphical Models in R. 2111 - Guillaume Fraux, Rose K. Cersonsky, Michele Ceriotti:
Chemiscope: interactive structure-property explorer for materials and molecules. 2117 - Lucas Frérot, Guillaume Anciaux, Valentine Rey, Son Pham-Ba, Jean-François Molinari:
Tamaas: a library for elastic-plastic contact of periodic rough surfaces. 2121 - Daniel Hey, Simon Murphy, Daniel Foreman-Mackey, Timothy Bedding, Benjamin J. S. Pope, David W. Hogg:
Maelstrom: A Python package for identifying companions to pulsating stars from their light travel time variations. 2125 - Simon Thomas Kelly, Michael A. Black:
graphsim: An R package for simulating gene expression data from graph structures of biological pathways. 2161 - Samantha C. Pendleton, Georgios V. Gkoutos:
Jabberwocky: an ontology-aware toolkit for manipulating text. 2168 - Jonas Rieger:
ldaPrototype: A method in R to get a Prototype of multiple Latent Dirichlet Allocations. 2181 - Stefanie Lueck, Ulrike Beukert, Dimitar Douchkov:
BluVision Macro - a software for automated powdery mildew and rust disease quantification on detached leaves. 2259 - Stefan Kloppenborg:
cmstatr: An R Package for Statistical Analysis of Composite Material Data. 2265 - Edward J. Oughton, Tom Russell, Joel T. Johnson, Caglar Yardim, Julius Kusuma:
itmlogic: The Irregular Terrain Model by Longley and Rice. 2266 - César Aybar, Qiusheng Wu, Lesly Bautista, Roy Yali, Antony Barja:
rgee: An R package for interacting with Google Earth Engine. 2272 - Iva Laginja, Hannah Wakeford:
ExoTiC-ISM: A Python package for marginalised exoplanet transit parameters across a grid of systematic instrument models. 2281 - Daniel Lehmberg, Felix Dietrich, Gerta Köster, Hans-Joachim Bungartz:
datafold: data-driven models for point clouds and time series on manifolds. 2283 - Vanessa V. Sochat:
GridTest: testing and metrics collection for Python. 2284 - Olga Stamati, Edward Andò, Emmanuel Roubin, Rémi Cailletaud, Max Wiebicke, Gustavo Pinzon, Cyrille Couture, Ryan Hurley, Robert Alexander Caulk, Denis Caillerie, Takashi Matsushima, Pierre Bésuelle, Félix Bertoni, Tom Arnaud, Alejandro Laborin, Riccardo Rorato, Yue Sun, Alessandro Tengattini, Olumide Okubadejo, Jean-Baptiste Colliat, Mohammad Saadatfar, Fernando Garcia, Christos Papazoglou, Ilija Vego, Sébastien Brisard, Jelke Dijkstra, Georgios Birmpilis:
spam: Software for Practical Analysis of Materials. 2286 - Dario Izzo, Francesco Biscani:
dcgp: Differentiable Cartesian Genetic Programming made easy. 2290 - Qiusheng Wu:
geemap: A Python package for interactive mapping with Google Earth Engine. 2305 - Dominique Makowski, Mattan S. Ben-Shachar, Indrajeet Patil, Daniel Lüdecke:
Methods and Algorithms for Correlation Analysis in R. 2306 - Kai-Cheng Yang, Brian Aronson, Yong-Yeol Ahn:
BiRank: Fast and Flexible Ranking on Bipartite Networks with R and Python. 2315 - Eric W. H. Hutton, Mark D. Piper, Gregory E. Tucker:
The Basic Model Interface 2.0: A standard interface for coupling numerical models in the geosciences. 2317 - Clara N. Bird, K. C. Bierlich:
CollatriX: A GUI to collate MorphoMetriX outputs. 2328 - Michael Wilson, Luke Strickland, Timothy Ballard:
FIPS: An R Package for Biomathematical Modelling of Human Fatigue Related Impairment. 2340 - Matthias Mittner:
pypillometry: A Python package for pupillometric analyses. 2348 - Rainier Barrett, Maghesree Chakraborty, Dilnoza Amirkulova, Heta A. Gandhi, Geemi P. Wellawatte, Andrew D. White:
HOOMD-TF: GPU-Accelerated, Online Machine Learning in the HOOMD-blue Molecular Dynamics Engine. 2367 - Emanuele Guidotti, David Ardia:
COVID-19 Data Hub. 2376 - Tristan Miller, Denis Auroux:
GPP, the Generic Preprocessor. 2400 - Keurfon Luu:
toughio: Pre- and post-processing Python library for TOUGH. 2412 - Kauê de Sousa, Adam H. Sparks, William Ashmall, Jacob van Etten, Svein Ø. Solberg:
chirps: API Client for the CHIRPS Precipitation Data in R. 2419 - Adrien Barbaresi:
htmldate: A Python package to extract publication dates from web pages. 2439 - Zachary del Rosario:
Grama: A Grammar of Model Analysis. 2462
Volume 5, Number 52, August 2020
- Suliman Sharif:
Cocktail Shaker: An open source drug expansion and enumeration library for peptides. 1992 - Lucas Kuepper, Holger Teichgraeber, Adam Brandt:
CapacityExpansion: A capacity expansion modeling framework in Julia. 2034 - Sean West, Hesham Ali, Dario Ghersi:
NEEP: null empirically estimated p-values for high-throughput molecular survival analysis. 2044 - Sander van Rijn, Sebastian Schmitt:
MF2: A Collection of Multi-Fidelity Benchmark Functions in Python. 2049 - Dorian Depriester, Régis Kubler:
MTEX2Gmsh: a tool for generating 2D meshes from EBSD data. 2094 - Matthias Büchi, Andreas Ahlenstorf:
audiomate: A Python package for working with audio datasets. 2135 - Nicolas Hug:
Surprise: A Python library for recommender systems. 2174 - Hartwig Anzt, Terry Cojean, Yen-Chen Chen, Goran Flegar, Fritz Göbel, Thomas Grützmacher, Pratik Nayak, Tobias Ribizel, Yuhsiang M. Tsai:
Ginkgo: A high performance numerical linear algebra library. 2260 - Bryant McDonnell, Katherine Ratliff, Michael Tryby, Jennifer Wu, Abhiram Mullapudi:
PySWMM: The Python Interface to Stormwater Management Model (SWMM). 2292 - Lukas Riedel, Santiago De Ríos, Dion Häfner, Ole Klein:
DORiE: A Discontinuous Galerkin Solver for Soil Water Flow and Passive Solute Transport Based on DUNE. 2313 - Yunus Sevinchan, Benjamin Herdeanu, Jeremias Traub:
dantro: a Python package for handling, transforming, and visualizing hierarchically structured data. 2316 - Sophie Laturnus, Adam von Daranyi, Ziwei Huang, Philipp Berens:
MorphoPy: A python package for feature extraction of neural morphologies. 2339 - David Tourigny, Jorge Muriel, Moritz Emanuel Beber:
dfba: Software for efficient simulation of dynamic flux-balance analysis models in Python. 2342 - Adina D. Feinstein, Benjamin Montet, Megan Ansdell:
\texttt{stella}: Convolutional Neural Networks for Flare Identification in \textit{TESS}. 2347 - Matthew Murbach, Brian Gerwe, Neal Dawson-Elli, Lok-kun Tsui:
impedance.py: A Python package for electrochemical impedance analysis. 2349 - Martin Uhrin, Sebastiaan P. Huber:
kiwiPy: Robust, high-volume, messaging for big-data and computational science workflows. 2351 - Sarah Hilton, John Huddleston, Allison Black, Khrystyna North, Adam S. Dingens, Trevor Bedford, Jesse D. Bloom:
dms-view: Interactive visualization tool for deep mutational scanning data. 2353 - Sambit Giri, Garrelt Mellema, Hannes Jensen:
Tools21cm: A python package to analyse the large-scale 21-cm signal from the Epoch of Reionization and Cosmic Dawn. 2363 - Tom Gustafsson, Geordie McBain:
scikit-fem: A Python package for finite element assembly. 2369 - Ramsharan Rangarajan, Adrian J. Lew:
DVRlib: A C++ library for geometric mesh improvement using Directional Vertex Relaxation. 2372 - Peter Crowther, Christopher Daniel:
xrdfit: A Python package for fitting synchrotron X-ray diffraction spectra. 2381 - Tianyuan Huang, Bin Zhao:
tidyfst: Tidy Verbs for Fast Data Manipulation. 2388 - Ottavia Epifania, Pasquale Anselmi, Egidio Robusto:
Implicit measures with reproducible results: The implicitMeasures package. 2394 - Mathew Schwartz, Todd C. Pataky, Cyril J. Donnelly:
seg1d: A Python package for Automated segmentation of one-dimensional (1D) data. 2404 - Florian Huber, Stefan Verhoeven, Christiaan Meijer, Hanno Spreeuw, Efraín Castilla, Cunliang Geng, Justin J. J. van der Hooft, Simon Rogers, Adam Belloum, Faruk Diblen, Jurriaan H. Spaaks:
matchms - processing and similarity evaluation of mass spectrometry data. 2411 - Josh Borrow, Alexei Borrisov:
swiftsimio: A Python library for reading SWIFT data. 2430 - Vincent A. Cicirello:
Chips-n-Salsa: A Java Library of Customizable, Hybridizable, Iterative, Parallel, Stochastic, and Self-Adaptive Local Search Algorithms. 2448 - Lukas Adamowicz, Shyamal Patel:
Sit2StandPy: An Open-Source Python Package for Detecting and Quantifying Sit-to-Stand Transitions Using an Accelerometer on the Lower Back. 2449 - Stefano Mangiola, Anthony T. Papenfuss:
tidyHeatmap: an R package for modular heatmap production based on tidy principles. 2472 - Álvaro Tejero-Cantero, Jan Boelts, Michael Deistler, Jan-Matthis Lueckmann, Conor Durkan, Pedro J. Gonçalves, David S. Greenberg, Jakob H. Macke:
sbi: A toolkit for simulation-based inference. 2505 - Santiago Badia, Francesc Verdugo:
Gridap: An extensible Finite Element toolbox in Julia. 2520 - Roni Kobrosly:
causal-curve: A Python Causal Inference Package to Estimate Causal Dose-Response Curves. 2523 - Leevi Kerkelä, Fabio Nery, Matt G. Hall, Chris A. Clark:
Disimpy: A massively parallel Monte Carlo simulator for generating diffusion-weighted MRI data in Python. 2527 - Aaron Cochrane:
TEfits: Nonlinear regression for time-evolving indices. 2535 - Brendan Boyd, Devin Silvia, Brian W. O'Shea, Jason Tumlinson, Molly Peeples, Nicholas Earl:
SALSA: A Python Package for Constructing Synthetic Quasar Absorption Line Catalogs from Astrophysical Hydrodynamic Simulations. 2581
Volume 5, Number 53, September 2020
- Ali Ramadhan, Gregory LeClaire Wagner, Chris Hill, Jean-Michel Campin, Valentin Churavy, Tim Besard, Andre Souza, Alan Edelman, Raffaele Ferrari, John Marshall:
Oceananigans.jl: Fast and friendly geophysical fluid dynamics on GPUs. 2018 - Simo Tukiainen, Ewan J. O'Connor, Anniina Korpinen:
CloudnetPy: A Python package for processing cloud remote sensing data. 2123 - Lukas Riedel, Benjamin Herdeanu, Harald Mack, Yunus Sevinchan, Julian Weninger:
Utopia: A Comprehensive and Collaborative Modeling Framework for Complex and Evolving Systems. 2165 - Archis Joglekar, Matthew Levy:
VlaPy: A Python package for Eulerian Vlasov-Poisson-Fokker-Planck Simulations. 2182 - Michael A. Turi:
Scripts for Easier Use of Spice (SEUS): A Perl script package for simulating and creating batches of circuit netlists for Monte Carlo simulations when using Ngspice or Ngspice-based simulators. 2183 - Michael C. Heiber:
Excimontec v1.0: An Open-Source Software Tool for Kinetic Monte Carlo Simulations of Organic Electronic Devices. 2307 - Takeshi Abe, Yoshiyuki Asai:
Flint: a simulator for biological and physiological models in ordinary and stochastic differential equations. 2331 - Francesco Biscani, Dario Izzo:
A parallel global multiobjective framework for optimization: pagmo. 2338 - Allison Pfeiffer, Katherine R. Barnhart, Jonathan Czuba, Eric W. H. Hutton:
NetworkSedimentTransporter: A Landlab component for bed material transport through river networks. 2341 - Agah Karakuzu, Mathieu Boudreau, Tanguy Duval, Tommy Boshkovski, Ilana Leppert, Jean-François Cabana, Ian Gagnon, Pascale Béliveau, G. Bruce Pike, Julien Cohen-Adad, Nikola Stikov:
qMRLab: Quantitative MRI analysis, under one umbrella. 2343 - Hartmut Kaiser, Patrick Diehl, Adrian S. Lemoine, Bryce Lelbach, Parsa Amini, Agustín Berge, John Biddiscombe, Steven R. Brandt, Nikunj Gupta, Thomas Heller, Kevin A. Huck, Zahra Khatami, Alireza Kheirkhahan, Auriane Reverdell, Shahrzad Shirzad, Mikael Simberg, Bibek Wagle, Weile Wei, Tianyi Zhang:
HPX - The C++ Standard Library for Parallelism and Concurrency. 2352 - Abel Marin-Laflèche, Matthieu Haefele, Laura Scalfi, Alessandro Coretti, Thomas Dufils, Guillaume Jeanmairet, Stewart Reed, Alessandra Serva, Roxanne Berthin, Camille Bacon, Sara Bonella, Benjamin Rotenberg, Paul Madden, Mathieu Salanne:
MetalWalls: A classical molecular dynamics software dedicated to the simulation of electrochemical systems. 2373 - Tamás Kiss, Stephen Morairty, Michael Schwartz, Thomas Kilduff, Derek L. Buhl, Dmitri Volfson:
Automated Sleep Stage Scoring Using k-Nearest Neighbors Classifier. 2377 - Sam Ritchie, Ambrose Slone, Vinay V. Ramasesh:
Caliban: Docker-based job manager for reproducible workflows. 2403 - Guillaume Maze, Kevin Balem:
argopy: A Python library for Argo ocean data analysis. 2425 - Romain Martinez, Benjamin Michaud, Mickaël Begon:
pyomeca: An Open-Source Framework for Biomechanical Analysis. 2431 - Luka Opasic, Jacob G. Scott, Arne Traulsen, Carsten Fortmann-Grote:
CancerSim: A Cancer Simulation Package for Python 3. 2436 - Daniel Lüdecke, Mattan S. Ben-Shachar, Indrajeet Patil, Dominique Makowski:
Extracting, Computing and Exploring the Parameters of Statistical Models using R. 2445 - Steven Rich, Andrew Tran, Aaron Williams, Jason Holt, Jeffery Sauer, Taylor Oshan:
arcos and arcospy: R and Python packages for accessing the DEA ARCOS database from 2006 - 2014. 2450 - Mitchell Sullivan, Harm van Bakel:
Chromatiblock: scalable whole-genome visualization of structural differences in prokaryotes. 2451 - Knut Erik Teigen Giljarhus:
pyBEMT: An implementation of the Blade Element Momentum Theory in Python. 2480 - Markus Steiner, Silvia Grieder:
EFAtools: An R package with fast and flexible implementations of exploratory factor analysis tools. 2521 - Nima S. Hejazi, Jeremy R. Coyle, Mark J. van der Laan:
hal9001: Scalable highly adaptive lasso regression in R. 2526 - James Paynter:
PyGRB: A pure Python gamma-ray burst analysis package. 2536 - Joseph Baugher:
SeroTools: a Python package for Salmonella serotype data analysis. 2556 - John Zobolas, Martin Kuiper, Åsmund Flobak:
emba: R package for analysis and visualization of biomarkers in boolean model ensembles. 2583 - Jonas Rauber, Roland Zimmermann, Matthias Bethge, Wieland Brendel:
Foolbox Native: Fast adversarial attacks to benchmark the robustness of machine learning models in PyTorch, TensorFlow, and JAX. 2607 - Martin Millon, Malte Tewes, Vivien Bonvin, Bastian Lengen, Frédéric Courbin:
PyCS3: A Python toolbox for time-delay measurements in lensed quasars. 2654
Volume 5, Number 54, October 2020
- Harshvardhan Gazula, Ross Kelly, Javier Tomas Romero, Eric Verner, Bradley T. Baker, Rogers F. Silva, Hafiz Imtiaz, Debbrata K. Saha, Rajikha Raja, Jessica A. Turner, Anand D. Sarwate, Sergey M. Plis, Vince D. Calhoun:
COINSTAC: Collaborative Informatics and Neuroimaging Suite Toolkit for Anonymous Computation. 2166 - Wilson R. Lacerda Júnior, Luan da Andrade, Samuel Oliveira, Samir A. M. Martins:
SysIdentPy: A Python package for System Identification using NARMAX models. 2384 - Jannik Michelfeit:
multivar_horner: A Python package for computing Horner factorisations of multivariate polynomials. 2392 - Anwar Palakkan:
Bioassays: a new package in R for analyzing cellular assays. 2402 - Roni Choudhury, Jonathan Beezley, Brandon Davis, Jared Tomeck, Samuel Gratzl, Lilian Golzarri-Arroyo, Jun Wan, Daniel Raftery, Jeffrey Baumes, Thomas O'Connell:
Viime: Visualization and Integration of Metabolomics Experiments. 2410 - Lincoln Harris, Rohan Vanheusden, Olga B. Botvinnik, Spyros Darmanis:
cerebra: A tool for fast and accurate summarizing of variant calling format (VCF) files. 2432 - Stefan Heid, Daniel Weber, Henrik Bode, Eyke Hüllermeier, Oliver Wallscheid:
OMG: A Scalable and Flexible Simulation and Testing Environment Toolbox for Intelligent Microgrid Control. 2435 - Nima S. Hejazi, David C. Benkeser:
txshift: Efficient estimation of the causal effects of stochastic interventions in R. 2447 - Prakki Sridatta, Natascha Thevasagayam, Weizhen Xu, Kalisvar Marimuthu, Jeanette Teo, Indumathi Venkatachalam, Ng Tek:
CPgeneProfiler: A lightweight R package to profile the Carbapenamase genes from genome assemblies. 2473 - Thomas Germer, Tobias Uelwer, Stefan Conrad, Stefan Harmeling:
PyMatting: A Python Library for Alpha Matting. 2481 - Laur Ferris:
ocean_data_tools: A MATLAB toolbox for interacting with bulk freely-available oceanographic data. 2497 - Gillian Kant, Christoph Weisser, Benjamin Säfken:
TTLocVis: A Twitter Topic Location Visualization Package. 2507 - Ann S. Almgren, Maria Sazo, John B. Bell, Alice Harpole, Maximilian Katz, Jean M. Sexton, Donald E. Willcox, Weiqun Zhang, Michael Zingale:
CASTRO: A Massively Parallel Compressible Astrophysics Simulation Code. 2513 - David I. Ketcheson, Matteo Parsani, Zachary Grant, Aron J. Ahmadia, Hendrik Ranocha:
RK-Opt: A package for the design of numerical ODE solvers. 2514 - Soren Jordan, Andrew Q. Philips:
Exploring meaningful visual effects and quantities of interest from dynamic models through dynamac. 2528 - Fabian M. Schaller, Jenny Wagner, Sebastian C. Kapfer:
papaya2: 2D Irreducible Minkowski Tensor computation. 2538 - Steven Goldman:
The Dusty Evolved Star Kit (DESK): A Python package for fitting the Spectral Energy Distribution of Evolved Stars. 2554 - Matthew L. Evans, Andrew Morris:
matador: a Python library for analysing, curating and performing high-throughput density-functional theory calculations. 2563 - Neil Wu, Gaetan K. W. Kenway, Charles A. Mader, John Jasa, Joaquim R. R. A. Martins:
pyOptSparse: A Python framework for large-scale constrained nonlinear optimization of sparse systems. 2564 - Jessica Nash, Taylor Barnes, Valerie Welborn:
ELECTRIC: Electric fields Leveraged from multipole Expansion Calculations in Tinker Rapid Interface Code. 2576 - John Hoffer, Rumana Rashid, Jeremy Muhlich, Yu-An Chen, Douglas Russell, Juha Ruokonen, Robert Krüger, Hanspeter Pfister, Sandro Santagata, Peter K. Sorger:
Minerva: a light-weight, narrative image browser for multiplexed tissue images. 2579 - Miroslav Zabic, Ben Matthias, Alexander Heisterkamp, Tammo Ripken:
Open Source Optical Coherence Tomography Software. 2580 - Steven G. Murray, Bradley Greig, Andrei Mesinger, Julian Muñoz, Yuxiang Qin, Jaehong Park, Catherine Watkinson:
21cmFAST v3: A Python-integrated C code for generating 3D realizations of the cosmic 21cm signal. 2582 - Jolle W. Jolles:
pirecorder: Controlled and automated image and video recording with the raspberry pi. 2584 - Jayaram Hariharan, Kyle Wright, Paola Passalacqua:
dorado: A Python package for simulating passive particle transport in shallow-water flows. 2585 - John D. Boy:
textnets: A Python package for text analysis with networks. 2594 - Harry Bevins:
maxsmooth: Derivative Constrained Function Fitting. 2596 - Taylor Brown:
A Short Introduction to PF: A C++ Library for Particle Filtering. 2599 - Matija Cufar:
Ripserer.jl: flexible and efficient persistent homology computation in Julia. 2614 - Jan Brammer:
biopeaks: a graphical user interface for feature extraction from heart- and breathing biosignals. 2621 - Nicole Thompson, Theodore Cohen, Sarah Alamdari, Chih-Wei Hsu, Grant Williamson, David Beck, Vincent Holmberg:
DiffCapAnalyzer: A Python Package for Quantitative Analysis of Total Differential Capacity Data. 2624 - Vincent Alcazer:
StatAid: An R package with a graphical user interface for data analysis. 2630 - Tanguy Lunel, Daniel R. Rousse:
pvpumpingsystem: A Python package for modeling and sizing photovoltaic water pumping systems. 2637 - Maciej Bak, Anna Rozlach:
Moran Pycess: a Python package to simulate Moran processes driven by game theory. 2643 - Christopher Khan, Brett C. Byram:
GENRE (GPU Elastic-Net REgression): A CUDA-Accelerated Package for Massively Parallel Linear Regression with Elastic-Net Regularization. 2644 - Luke A. McGuinness, Lena Schmidt:
medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R. 2651 - Nico Curti, Daniele Dall'Olio, Daniel Remondini, Gastone C. Castellani, Enrico Giampieri:
rFBP: Replicated Focusing Belief Propagation algorithm. 2663 - Iraklis A. Klampanos, Chrysoula Themeli, Alessandro Spinuso, Rosa Filgueira, Malcolm P. Atkinson, André Gemünd, Vangelis Karkaletsis:
DARE Platform: a Developer-Friendly and Self-Optimising Workflows-as-a-Service Framework for e-Science on the Cloud. 2664 - Federico Claudi, Luigi Petrucco, Adam L. Tyson, Tiago Branco, Troy W. Margrie, Ruben Portugues:
BrainGlobe Atlas API: a common interface for neuroanatomical atlases. 2668 - Neal W. Morton:
Psifr: Analysis and visualization of free recall data. 2669 - George Datseris, Jonas Isensee, Sebastian Pech, Tamás Gál:
DrWatson: the perfect sidekick for your scientific inquiries. 2673 - Alexander Rockhill, Ahmed M. Raslan, Nicole C. Swann:
pd-parser: A tool for Matching Photodiode Deflection Events to Time-Stamped Events. 2674 - Jan André Reuter, Miriam Menzel:
SLIX: A Python package for fully automated evaluation of Scattered Light Imaging measurements on brain tissue. 2675 - Samuel Palmer, Vincenzo Giannini:
Peacock.jl: Photonic crystals in Julia. 2678 - David Hassell, Sadie Bartholomew:
cfdm: A Python reference implementation of the CF data model. 2717 - David Stansby, Anthony Yeates, Samuel Badman:
pfsspy: A Python package for potential field source surface modelling. 2732 - Philip Meier, Volker Lohweg:
pystiche: A Framework for Neural Style Transfer. 2761 - Richèl Bilderbeek:
mcbette: model comparison using babette. 2762 - Keith Goldfeld, Jacob Wujciak-Jens:
simstudy: Illuminating research methods through data generation. 2763
Volume 5, Number 55, November 2020
- Mikko Nieminen, Oliver Stolpe, Franziska Schumann, Manuel Holtgrewe, Dieter Beule:
SODAR Core: a Django-based framework for scientific data management and analysis web apps. 1584 - Kathryn Jones, Néstor Espinoza:
catwoman: A transit modelling Python package for asymmetric light curves. 2382 - Guillaume Plique:
Talisman: a JavaScript archive of fuzzy matching, information retrieval and record linkage building blocks. 2405 - Guangzhi Xu, Xiaohui Ma, Ping Chang:
IPART: A Python Package for Image-Processing based Atmospheric River Tracking. 2407 - Romain Montagné, David Torres Sanchez, Halvard Storbugt:
VRPy: A Python package for solving a range of vehicle routing problems with a column generation approach. 2408 - Kristian K. Ullrich:
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R. 2424 - Chung-hong Chan, Marius Sältzer:
oolong: An R package for validating automated content analysis tools. 2461 - Charlotte A. L. Haley, Christopher J. Geoga:
Multitaper.jl: A Julia package for frequency domain analysis of time series. 2463 - Nick Barlow, Camila Smith, Samuel Van Stroud, Jesse F. Abrams, Chris Boulton, Joshua Buxton:
pyveg: A Python package for analysing the time evolution of patterned vegetation using Google Earth Engine. 2483 - Peter Kruyen:
DearScholar: A mobile application to conduct qualitative and quantitative diary research. 2506 - David I. Ketcheson, Hendrik Ranocha, Matteo Parsani, Umair bin Waheed, Yiannis Hadjimichael:
NodePy: A package for the analysis of numerical ODE solvers. 2515 - Stefanie Wiegand:
BigX: A geographical dataset visualisation tool. 2537 - Asmus Skar, Sebastian Andersen:
ALVA: An adaptive MATLAB package for layered viscoelastic analysis. 2548 - Raphael Sonabend, Franz J. Király:
set6: R6 Mathematical Sets Interface. 2598 - Siavash Yasini, Marcelo Alvarez, Emmanuel Schaan, Karime Maamari, Shobeir Mazinani, Nareg Mirzatuny, Elena Pierpaoli:
AstroPaint: A Python Package for Painting Halo Catalogs into Celestial Maps. 2608 - Aman Chokshi, Jack L. B. Line, Benjamin McKinley:
EMBERS: Experimental Measurement of BEam Responses with Satellites. 2629 - Katja Heuer, Roberto Toro:
Reorient: A Web tool for reorienting and cropping MRI data. 2670 - Arthur P. Goldberg, Jonathan R. Karr:
DE-Sim: an object-oriented, discrete-event simulation tool for data-intensive modeling of complex systems in Python. 2685 - Hemanth Pruthvi:
PyAstroPol: A Python package for the instrumental polarization analysis of the astronomical optics. 2693 - Anthony D. Blaom, Franz J. Király, Thibaut Liénart, Yiannis Simillides, Diego Arenas, Sebastian J. Vollmer:
MLJ: A Julia package for composable machine learning. 2704 - Yunguan Fu, Nina Montaña Brown, Shaheer U. Saeed, Adrià Casamitjana, Zachary Baum, Rémi Delaunay, Qianye Yang, Alexander Grimwood, Zhe Min, Stefano B. Blumberg, Juan Eugenio Iglesias, Dean C. Barratt, Ester Bonmati, Daniel C. Alexander, Matthew J. Clarkson, Tom Vercauteren, Yipeng Hu:
DeepReg: a deep learning toolkit for medical image registration. 2705 - M. Hakan Satman, Kopilov Aleksandr:
RCaller: A Java package for interfacing R. 2722 - Kshitij Aggarwal, Devansh Agarwal, Joseph Kania, William Fiore, Reshma Thomas, Scott Ransom, Paul Demorest, Robert B. Wharton, Sarah Burke-Spolaor, Duncan Lorimer, Maura Mclaughlin, Nathaniel Garver-Daniels:
Your: Your Unified Reader. 2750 - Ashkbiz Danehkar:
AtomNeb Python Package, an addendum to AtomNeb: IDL Library for Atomic Data of Ionized Nebulae. 2797 - Ashkbiz Danehkar:
pyEQUIB Python Package, an addendum to proEQUIB: IDL Library for Plasma Diagnostics and Abundance Analysis. 2798 - Will T. Barnes, Mark C. M. Cheung, Monica G. Bobra, Paul Boerner, Georgios Chintzoglou, Drew Leonard, Stuart Mumford, Nicholas Padmanabhan, Albert J. Shih, Nina Shirman, David Stansby, Paul J. Wright:
aiapy: A Python Package for Analyzing Solar EUV Image Data from AIA. 2801 - Patrick Wright, Alan Haynes, Milica Markovic:
secuTrialR: Seamless interaction with clinical trial databases in R. 2816 - Andy H. Wilkins, Christopher P. Green, Jonathan Ennis-King:
PorousFlow: a multiphysics simulation code for coupled problems in porous media. 2176 - Anna Mölter:
XLUR: A land use regression wizard for ArcGIS Pro. 2177 - Colin Jacobs:
"Sensie": Probing the sensitivity of neural networks. 2180 - Erik Sverdrup, Ayush Kanodia, Zhengyuan Zhou, Susan Athey, Stefan Wager:
policytree: Policy learning via doubly robust empirical welfare maximization over trees. 2232 - Allan Campopiano, Rand R. Wilcox:
Hypothesize: Robust Statistics for Python. 2241 - Adithi R. Upadhya, Pratyush Agrawal, Sreekanth Vakacherla, Meenakshi Kushwaha:
mmaqshiny v1.0: R-Shiny package to explore Air-Quality Mobile-Monitoring data. 2250 - Samuel H. Forbes:
PupillometryR: An R package for preparing and analysing pupillometry data. 2285 - Brandon L. Thayer, Zeyu Mao, Yijing Liu, Katherine R. Davis, Thomas J. Overbye:
Easy SimAuto (ESA): A Python Package that Simplifies Interacting with PowerWorld Simulator. 2289 - Dennis Gläser, Bernd Flemisch, Holger Class, Rainer Helmig:
Frackit: a framework for stochastic fracture network generation and analysis. 2291 - Bartosz J. Bartmanski, Ruth E. Baker:
StoSpa2: A C++ software package for stochastic simulations of spatially extended systems. 2293 - J. Xavier Prochaska, Joseph F. Hennawi, Kyle B. Westfall, Ryan J. Cooke, Feige Wang, Tiffany Hsyu, Frederick B. Davies, Emanuele Paolo Farina, Debora Pelliccia:
PypeIt: The Python Spectroscopic Data Reduction Pipeline. 2308 - Rajesh Singh, Ronojoy Adhikari:
PyStokes: phoresis and Stokesian hydrodynamics in Python. 2318 - Monsuru Adepeju, Samuel Langton, Jon Bannister:
Akmedoids R package for generating directionally-homogeneous clusters of longitudinal data sets. 2379 - Bérenger Bramas:
TBFMM: A C++ generic and parallel fast multipole method library. 2444 - Julia Brettschneider, Oscar Giles, Wilfrid S. Kendall, Tomas Lazauskas:
DetectorChecker: analyzing patterns of defects in detector screens. 2474 - Jonathan Demaeyer, Lesley De Cruz, Stéphane Vannitsem:
qgs: A flexible Python framework of reduced-order multiscale climate models. 2597 - Clare Horscroft, Reuben J. Pengelly, Timothy J. Sluckin, Andrew Collins:
zalpha: an R package for the identification of regions of the genome under selection. 2638 - Austin Baird, Matthew McDaniel, Steven A. White, Nathan Tatum, Lucas Marin:
BioGears: A C++ library for whole body physiology simulations. 2645 - Joseph Sweeney, Ruben Purdy, Ronald D. Blanton, Lawrence T. Pileggi:
CircuitGraph: A Python package for Boolean circuits. 2646 - Oskar Laverny:
Empirical and non-parametric copula models with the cort R package. 2653 - Florian Knoop, Thomas A. r. Purcell, Matthias Scheffler, Christian Carbogno:
FHI-vibes: _Ab Initio_ Vibrational Simulations. 2671 - Nedeljko Radulovic, Dihia Boulegane, Albert Bifet:
SCALAR - A Platform for Real-time Machine Learning Competitions on Data Streams. 2676 - David R. Tyrpak, Yaocun Li, Siqi Lei, J. Andrew MacKay:
SIAL: A simple image analysis library for wet-lab scientists. 2689 - Milica Grahovac, Katie Coughlin, Hannes Gerhart, Robert Hosbach:
Multiscale Solar Water Heating. 2695 - Raymond Carragher, Chris Robertson:
c212: An R Package for the Detection of Safety Signals in Clinical Trials Using Body-Systems (System Organ Classes). 2706 - Oliver Maier, Stefan M. Spann, Markus Bödenler, Rudolf Stollberger:
PyQMRI: An accelerated Python based Quantitative MRI toolbox. 2727 - Jason Evanoff, Chris R. Vernon, Stephanie Waldhoff, Abigail Snyder, Corinne Hartin:
hectorui: A web-based interactive scenario builder and visualization application for the Hector climate model. 2782 - Tristan Salles, Claire Mallard, Sabin Zahirovic:
gospl: Global Scalable Paleo Landscape Evolution. 2804 - Yoel Cortés-Peña:
Thermosteam: BioSTEAM's Premier Thermodynamic Engine. 2814 - Mattan S. Ben-Shachar, Daniel Lüdecke, Dominique Makowski:
effectsize: Estimation of Effect Size Indices and Standardized Parameters. 2815 - Fruzsina Julia Agocs:
(py)oscode: fast solutions of oscillatory ODEs. 2830 - Miles Lucas, Michael Bottom:
ADI.jl: A Julia Package for High-Contrast Imaging. 2843 - Erik Bülow:
coder: An R package for code-based item classification and categorization. 2916 - Austin Koontz, Benjamin Brandt, Curtis E. Dyreson, William D. Pearse:
SymbiotaR2: An R Package for Accessing Symbiota2 Data. 2917
Volume 5, Number 56, December 2020
- Benjamin Edward Bolling:
The DynaGUI package. 1942 - Ross G. Meyer, Thomas P. Martin, Zane R. Jobe:
CoreBreakout: Subsurface Core Images to Depth-Registered Datasets. 1969 - Alexander Clausen, Dieter Weber, Karina Ruzaeva, Vadim Migunov, Anand Baburajan, Abijith Bahuleyan, Jan Caron, Rahul Chandra, Sayandip Halder, Magnus Nord, Knut Müller-Caspary, Rafal E. Dunin-Borkowski:
LiberTEM: Software platform for scalable multidimensional data processing in transmission electron microscopy. 2006 - Aslak Wigdahl Bergersen, Andreas Slyngstad, Sebastian Gjertsen, Alban Souche, Kristian Valen-Sendstad:
turtleFSI: A Robust and Monolithic FEniCS-based Fluid-Structure Interaction Solver. 2089 - Romain Hennequin, Anis Khlif, Félix Voituret, Manuel Moussallam:
Spleeter: a fast and efficient music source separation tool with pre-trained models. 2154 - Hajk-Georg Drost:
LTRpred: _de novo_ annotation of intact retrotransposons. 2170 - Martí Bosch:
DetecTree: Tree detection from aerial imagery in Python. 2172
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