Volume 9 -

Issue 1 - 2021

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Software Metapapers

BayesFactorFMRI: Implementing Bayesian Second-Level fMRI Analysis with Multiple Comparison Correction and Bayesian Meta-Analysis of fMRI Images with Multiprocessing

Hyemin Han
- PDF (EN)
- XML (EN)
02 Feb 2021

9(1):1
Smurf: System for Modelling with Uncertainty Reduction, and Forecasting

Isabelle Mirouze, Sophie Ricci
- PDF (EN)
- XML (EN)
05 Feb 2021

9(1):2
OpenOpticalFlow_PIV: An Open Source Program Integrating Optical Flow Method with Cross- Correlation Method for Particle Image Velocimetry

Tianshu Liu, David M. Salazar
- PDF (EN)
- XML (EN)
05 Feb 2021

9(1):3
PBTK Optimizer: An Open Source Application for PBTK Model Parameter Optimization in Python

Ian Edhlund, Matthew Macauley, Cindy Lee
- PDF (EN)
- XML (EN)
14 Apr 2021

9(1):4
VIFECO: An Open-Source Software for Counting Features on a Video

Philippe Apparicio, David Maignan, Jérémy Gelb
- PDF (EN)
- XML (EN)
07 May 2021

9(1):7
Pymrio – A Python Based Multi-Regional Input-Output Analysis Toolbox

Konstantin Stadler
- PDF (EN)
- XML (EN)
11 May 2021

9(1):8
A Python Package to Calculate the OLR-Based Index of the Madden- Julian-Oscillation (OMI) in Climate Science and Weather Forecasting

Christoph G. Hoffmann, George N. Kiladis, Maria Gehne, Christian von Savigny
- PDF (EN)
- XML (EN)
14 May 2021

9(1):9
Embo: a Python package for empirical data analysis using the Information Bottleneck

Eugenio Piasini, Alexandre L. S. Filipowicz, Jonathan Levine, Joshua I. Gold
- PDF (EN)
- XML (EN)
31 May 2021

9(1):10
FastGAPP – A MATLABBased Program Supports Earth Scientists Interpreting Geochemical, Petrological and Sedimentological Data

Florian Riefstahl, Felix Gross
- PDF (EN)
- XML (EN)
31 May 2021

9(1):11
Particle Image Velocimetry for MATLAB: Accuracy and enhanced algorithms in PIVlab

William Thielicke, René Sonntag
- PDF (EN)
- XML (EN)
31 May 2021

9(1):12
Introduction to Freva – A Free Evaluation System Framework for Earth System Modeling

Christopher Kadow, Sebastian Illing, Etor E. Lucio-Eceiza, Martin Bergemann, Mahesh Ramadoss, Philipp S. Sommer, Oliver Kunst, Thomas Schartner, Klaus Pankatz, Jens Grieger, Mareike Schuster, Andy Richling, Hannes Thiemann, Ingo Kirchner, Henning W Rust, Thomas Ludwig, Ulrich Cubasch, Uwe Ulbrich
- PDF (EN)
- XML (EN)
02 Jun 2021

9(1):13
Python Battery Mathematical Modelling (PyBaMM)

Valentin Sulzer, Scott G. Marquis, Robert Timms, Martin Robinson, S. Jon Chapman
- PDF (EN)
- XML (EN)
08 Jun 2021

9(1):14
Simple RGC: ImageJ Plugins for Counting Retinal Ganglion Cells and Determining the Transduction Efficiency of Viral Vectors in Retinal Wholemounts

Tiger Cross, Rasika Navarange, Joon-Ho Son, William Burr, Arjun Singh, Kelvin Zhang, Miruna Rusu, Konstantinos Gkoutzis, Andrew Osborne, Bart Nieuwenhuis
- PDF (EN)
- XML (EN)
09 Jun 2021

9(1):15
Palabos-npFEM: Software for the Simulation of Cellular Blood Flow (Digital Blood)

Christos Kotsalos, Jonas Latt, Bastien Chopard
- PDF (EN)
- XML (EN)
24 Jun 2021

9(1):16
CMakeCatchTemplate: A C++ template project

Thomas Dowrick, Mian Ahmad, Stephen Thompson, James Hetherington, Jonathan Cooper, Matt Clarkson
- PDF (EN)
- XML (EN)
16 Jul 2021

9(1):17
Register Transfer Level Disparity generator with Stereo Vision

Aruna Jayasena
- PDF (EN)
- XML (EN)
19 Jul 2021

9(1):18
bbsBayes: An R Package for Hierarchical Bayesian Analysis of North American Breeding Bird Survey Data

Brandon P. M. Edwards, Adam C. Smith
- PDF (EN)
- XML (EN)
20 Jul 2021

9(1):19
Go Listen: An End-to-End Online Listening Test Platform

Dan Barry, Qijian Zhang, Pheobe Wenyi Sun, Andrew Hines
- PDF (EN)
- XML (EN)
20 Jul 2021

9(1):20
SmaRT-CIT: Smartphone App for the Response Time Concealed Information Test with Ready-to-Use Android Deployment

Gáspár Lukács
- PDF (EN)
- XML (EN)
21 Jul 2021

9(1):21
DefocusTracker: A Modular Toolbox for Defocusing-based, Single-Camera, 3D Particle Tracking

Rune Barnkob, Massimiliano Rossi
- PDF (EN)
- XML (EN)
23 Jul 2021

9(1):22
HELMpy, Open Source Package of Power Flow Solvers, Including the Holomorphic Embedding Load Flow Method (HELM), Developed on Python 3

Tulio Molina, Juan Ortega, Juan Muñoz
- PDF (EN)
- XML (EN)
18 Aug 2021

9(1):23
auto{API} – A Web-Based Tool for Specification of an API Endpoint to Return JSON Data From an XML Source

Adrian Moore
- PDF (EN)
- XML (EN)
20 Aug 2021

9(1):24
Robotic Template Library

Ales Jelinek, Adam Ligocki, Ludek Zalud
- PDF (EN)
- XML (EN)
20 Sep 2021

9(1):25
Portage: A Modular Data Remap Library for Multiphysics Applications on Advanced Architectures

Angela Herring, Charles Ferenbaugh, Christopher Malone, Daniel Shevitz, Evgeny Kikinzon, Gary Dilts, Hoby Rakotoarivelo, Jan Velechovsky, Konstantin Lipnikov, Navamita Ray, Rao Garimella
- PDF (EN)
- XML (EN)
28 Sep 2021

9(1):26
mixchar: An R Package for the Deconvolution of Thermal Decay Curves

Saras M. Windecker, Peter A. Vesk, Stacey M. Trevathan-Tackett, Nick Golding
- PDF (EN)
- XML (EN)
01 Oct 2021

9(1):27
A Python Package for Heart Rate Variability Analysis and Signal Preprocessing

Robin Champseix, Laurent Ribiere, Clément Le Couedic
- PDF (EN)
- XML (EN)
06 Oct 2021

9(1):28
An ObsPy Library for Event Detection and Seismic Attribute Calculation: Preparing Waveforms for Automated Analysis

Ross J. Turner, Rebecca B. Latto, Anya M. Reading
- PDF (EN)
- XML (EN)
19 Oct 2021

9(1):29
%svy_freqs: A Generic SAS Macro for Creating Publication-Quality Three-Way Cross-Tabulations

Jacques Muthusi, Peter W. Young, Samuel Mwalili
- PDF (EN)
- XML (EN)
22 Oct 2021

9(1):30
oflibnumpy & oflibpytorch: Optical Flow Handling and Manipulation in Python

Claudio S. Ravasio, Lyndon Da Cruz, Christos Bergeles
- PDF (EN)
- XML (EN)
26 Nov 2021

9(1):31
CESER: An R Package to Compute Cluster Estimated Standard Errors

Diogo Ferrari
- PDF (EN)
- XML (EN)
30 Nov 2021

9(1):32
Adaguc-Server: Interactive Access to Heterogeneous Meteorological and Climatological Datasets Using Open Standards

Maarten Plieger, Ernst de Vreede
- PDF (EN)
- XML (EN)
09 Dec 2021

9(1):33
CSVDataMerge: A Simple and Free Program for Concatenating Experimental Data Files

James R. Schmidt
- PDF (EN)
- XML (EN)
10 Dec 2021

9(1):34
bayesint: A Python Package for Calculating Bayesian Credible Intervals of Ratios of Beta Distributions

M. Bekker-Nielsen Dunbar, Thomas J. R. Finnie
- PDF (EN)
- XML (EN)
21 Dec 2021

9(1):35

Volume 9 -

Issue 1 - 2021

Software Metapapers

BayesFactorFMRI: Implementing Bayesian Second-Level fMRI Analysis with Multiple Comparison Correction and Bayesian Meta-Analysis of fMRI Images with Multiprocessing

Smurf: System for Modelling with Uncertainty Reduction, and Forecasting

OpenOpticalFlow_PIV: An Open Source Program Integrating Optical Flow Method with Cross- Correlation Method for Particle Image Velocimetry

PBTK Optimizer: An Open Source Application for PBTK Model Parameter Optimization in Python

VIFECO: An Open-Source Software for Counting Features on a Video

Pymrio – A Python Based Multi-Regional Input-Output Analysis Toolbox

A Python Package to Calculate the OLR-Based Index of the Madden- Julian-Oscillation (OMI) in Climate Science and Weather Forecasting

Embo: a Python package for empirical data analysis using the Information Bottleneck

FastGAPP – A MATLABBased Program Supports Earth Scientists Interpreting Geochemical, Petrological and Sedimentological Data

Particle Image Velocimetry for MATLAB: Accuracy and enhanced algorithms in PIVlab

Introduction to Freva – A Free Evaluation System Framework for Earth System Modeling

Python Battery Mathematical Modelling (PyBaMM)

Simple RGC: ImageJ Plugins for Counting Retinal Ganglion Cells and Determining the Transduction Efficiency of Viral Vectors in Retinal Wholemounts

Palabos-npFEM: Software for the Simulation of Cellular Blood Flow (Digital Blood)

CMakeCatchTemplate: A C++ template project

Register Transfer Level Disparity generator with Stereo Vision

bbsBayes: An R Package for Hierarchical Bayesian Analysis of North American Breeding Bird Survey Data

Go Listen: An End-to-End Online Listening Test Platform

SmaRT-CIT: Smartphone App for the Response Time Concealed Information Test with Ready-to-Use Android Deployment

DefocusTracker: A Modular Toolbox for Defocusing-based, Single-Camera, 3D Particle Tracking

HELMpy, Open Source Package of Power Flow Solvers, Including the Holomorphic Embedding Load Flow Method (HELM), Developed on Python 3

auto{API} – A Web-Based Tool for Specification of an API Endpoint to Return JSON Data From an XML Source

Robotic Template Library

Portage: A Modular Data Remap Library for Multiphysics Applications on Advanced Architectures

mixchar: An R Package for the Deconvolution of Thermal Decay Curves

A Python Package for Heart Rate Variability Analysis and Signal Preprocessing

An ObsPy Library for Event Detection and Seismic Attribute Calculation: Preparing Waveforms for Automated Analysis

%svy_freqs: A Generic SAS Macro for Creating Publication-Quality Three-Way Cross-Tabulations

oflibnumpy & oflibpytorch: Optical Flow Handling and Manipulation in Python

CESER: An R Package to Compute Cluster Estimated Standard Errors

Adaguc-Server: Interactive Access to Heterogeneous Meteorological and Climatological Datasets Using Open Standards

CSVDataMerge: A Simple and Free Program for Concatenating Experimental Data Files

bayesint: A Python Package for Calculating Bayesian Credible Intervals of Ratios of Beta Distributions

Issues in Research Software

Sustainable Research Software Hand-Over

oemof.tabular – Introducing Data Packages for Reproducible Workflows in Energy System Modeling

Issue Archive

Volume 9 - Issue 1 - 2021

Volume 8 - Issue 1 - 2020

Volume 7 - Issue 1 - 2019

Volume 6 - Issue 1 - 2018

Volume 5 - Issue 1 - 2017

Volume 4 - Issue 1 - 2016

Volume 3 - Issue 1 - 2015

Volume 2 - Issue 1 - 2014

Volume 1 - Issue 1 - 2013