Volume 5 -

Issue 1 - 2017

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Software Metapapers

pycalphad: CALPHAD-based Computational Thermodynamics in Python

Richard Otis, Zi-Kui Liu
- PDF (EN)
- XML (EN)
09 Jan 2017

5(1):1
Gridsampler – A Simulation Tool to Determine the Required Sample Size for Repertory Grid Studies

Mark Heckmann, Lukas Burk
- PDF (EN)
- XML (EN)
10 Jan 2017

5(1):2
RMPCDMD: Simulations of Colloids with Coarse-grained Hydrodynamics, Chemical Reactions and External Fields

Pierre de Buyl, Mu-Jie Huang, Laurens Deprez
- PDF (EN)
- XML (EN)
11 Jan 2017

5(1):3
Matlab Code for the Discrete Hankel Transform

Natalie Baddour, Ugo Chouinard
- PDF (EN)
- XML (EN)
11 Jan 2017

5(1):4
Cambridge Rocketry Simulator – A Stochastic Six-Degrees-of-Freedom Rocket Flight Simulator

Willem Eerland, Simon Box, András Sóbester
- XML (EN)
- PDF (EN)
21 Feb 2017

5(1):5
Tadarida: A Toolbox for Animal Detection on Acoustic Recordings

Yves Bas, Didier Bas, Jean-François Julien
- XML (EN)
- PDF (EN)
21 Feb 2017

5(1):6
Alida – Advanced Library for Integrated Development of Data Analysis Applications

Stefan Posch, Birgit Moeller
- PDF (EN)
- XML (EN)
23 Mar 2017

5(1):7
The Matlab Radial Basis Function Toolbox

Scott A. Sarra
- PDF (EN)
- XML (EN)
27 Mar 2017

5(1):8
preconfig: A Versatile Configuration File Generator for Varying Parameters

Francois Nedelec
- PDF (EN)
- XML (EN)
05 Apr 2017

5(1):9
xarray: N-D labeled Arrays and Datasets in Python

Stephan Hoyer, Joe Hamman
- PDF (EN)
- XML (EN)
05 Apr 2017

5(1):10
mma: An R Package for Mediation Analysis with Multiple Mediators

Qingzhao Yu, Bin Li
- PDF (EN)
- XML (EN)
12 Apr 2017

5(1):11
Generalized Sampling in Julia

Robert Dahl Jacobsen, Morten Nielsen, Morten Grud Rasmussen
- PDF (EN)
- XML (EN)
20 Apr 2017

5(1):12
MEDINA: MECCA Development in Accelerators – KPP Fortran to CUDA source-to-source Pre-processor

Michail Alvanos, Theodoros Christoudias
- XML (EN)
- PDF (EN)
28 Apr 2017

5(1):13
Teetool -- a probabilistic trajectory analysis tool

Willem Eerland, Simon Box, Hans Fangohr, András Sóbester
- XML (EN)
- PDF (EN)
17 May 2017

5(1):14
DifferentialEquations.jl – A Performant and Feature-Rich Ecosystem for Solving Differential Equations in Julia

Christopher Rackauckas, Qing Nie
- PDF (EN)
- XML (EN)
25 May 2017

5(1):15
ML-Ask: Open Source Affect Analysis Software for Textual Input in Japanese

Michal Ptaszynski, Pawel Dybala, Rafal Rzepka, Kenji Araki, Fumito Masui
- PDF (EN)
- XML (EN)
07 Jun 2017

5(1):16
VaMpy: A Python Package to Solve 1D Blood Flow Problems

Alexandra K. Diem, Neil W. Bressloff
- PDF (EN)
- XML (EN)
08 Jun 2017

5(1):17
HydroCloud: A Web Application for Exploring Stream Gage Data

Martin C. Roberge, Michael P. McGuire, Jie Lian
- PDF (EN)
- XML (EN)
23 Aug 2017

5(1):18
NeuroCharter: A Neural Networks Software to Visually Discover the Effects and Contributions between Interrelated Features

Mohammad N. Elnesr, A. A. Alazba
- PDF (EN)
- XML (EN)
04 Sep 2017

5(1):19
Web Tool for Navigating and Plotting SomaLogic ADAT Files

Foo Cheung, Giovanna Fantoni, Maria Conner, Brian A. Sellers, Yuri Kotliarov, Julián Candia, Katherine Stagliano, Angélique Biancotto
- PDF (EN)
- XML (EN)
08 Sep 2017

5(1):20
Xanthos – A Global Hydrologic Model

Xinya Li, Chris R. Vernon, Mohamad I. Hejazi, Robert P. Link, Leyang Feng, Yaling Liu, Lynn T. Rauchenstein
- PDF (EN)
- XML (EN)
11 Sep 2017

5(1):21
Picasso: A Modular Framework for Visualizing the Learning Process of Neural Network Image Classifiers

Ryan Henderson, Rasmus Rothe
- PDF (EN)
- XML (EN)
11 Sep 2017

5(1):22
VScope — Data Acquisition and Analysis for Voltage-sensitive Dye Imaging Using Multiple Cameras and Electrophysiology

Daniel A. Wagenaar
- PDF (EN)
- XML (EN)
13 Sep 2017

5(1):23
GENESIS – The GENEric SImulation System for Modelling State Transitions

Matthew S. Gillman
- PDF (EN)
- XML (EN)
20 Sep 2017

5(1):24
ATUS-Commuting: Stata Code to Calculate Commuting Time in the American Time Use Survey

Gray Kimbrough
- PDF (EN)
- XML (EN)
25 Sep 2017

5(1):25
The Giles Ecosystem – Storage, Text Extraction, and OCR of Documents

Julia Damerow, B. R. Erick Peirson, Manfred D. Laubichler
- PDF (EN)
- XML (EN)
28 Sep 2017

5(1):26
GIFT-Grab: Real-time C++ and Python multi-channel video capture, processing and encoding API

Dzhoshkun Ismail Shakir, Luis Carlos García-Peraza-Herrera, Pankaj Daga, Tom Doel, Matthew J. Clarkson, Sébastien Ourselin, Tom Vercauteren
- PDF (EN)
- XML (EN)
09 Oct 2017

5(1):27
DSCImageCalc – Software for Determining Similarity Coefficients for the Analysis of Image Segmentations

Tom Lawton
- PDF (EN)
- XML (EN)
18 Oct 2017

5(1):28
OpenOpticalFlow: An Open Source Program for Extraction of Velocity Fields from Flow Visualization Images

Tianshu Liu
- PDF (EN)
- XML (EN)
20 Oct 2017

5(1):29
Jug: Software for Parallel Reproducible Computation in Python

Luis Pedro Coelho
- PDF (EN)
- XML (EN)
27 Oct 2017

5(1):30
ImageSURF: An ImageJ Plugin for Batch Pixel-Based Image Segmentation Using Random Forests

Aidan O'Mara, Anna E. King, James C. Vickers, Matthew T. K. Kirkcaldie
- PDF (EN)
- XML (EN)
06 Nov 2017

5(1):31
BayesTwin: An R Package for Bayesian Inference of Item-Level Twin Data

Inga Schwabe
- PDF (EN)
- XML (EN)
14 Nov 2017

5(1):33

Issues in Research Software

Reproducibility in Research: Systems, Infrastructure, Culture

Tom Crick, Benjamin Hall, Samin Ishtiaq
- PDF (EN)
- XML (EN)
09 Nov 2017

5(1):32

Issue Archive