Comment: Added asynchronous BNs to the introduction, added figure showing an attractor, updated figure node correlations, explicitly mentioned if a figure is BoolSi output, stated correlations of CK and TDIF on proliferation in case study

pyfMRIqc is a tool for checking the quality of raw functional magnetic resonance imaging (fMRI) data. pyfMRIqc produces a range of output files which can be used to identify fMRI data quality issues such as artefacts, motion, signal loss etc. This tool creates a number ...

 xarray is an open source project and Python package that provides a toolkit and data structures for N-dimensional labeled arrays. Our approach combines an application programing interface (API) inspired by pandas with the Common Data Model for self-described scientific...

CowLog is a cross-platform application to code behaviours from video recordings for use in behavioural research. The software has been used in several studies e.g. to study sleep in dairy calves, emotions in goats and the mind wandering related to computer use during le...

This paper describes an easy-to-use open source software tool implementing a commonly used additive model (Halpern et al., Science , 2008) for mapping human impacts on marine ecosystems. The tool has been used to map the potential for cumulative human impacts in Arctic ...

Genome-wide regression using a number of genome-wide markers as predictors is now widely used for genome-wide association mapping and genomic prediction. We developed novel software for genome-wide regression which we named VIGoR (variational Bayesian inference for geno...

MiToBo is a toolbox and Java library for solving basic as well as advanced image processing and analysis tasks. It features a rich collection of fundamental, intermediate and high-level image processing operators and algorithms as well as a couple of sophisticated tools...

WekaPyScript is a package for the machine learning software WEKA that allows learning algorithms and preprocessing methods for classification and regression to be written in Python, as opposed to WEKA’s implementation language, Java. This opens up WEKA to its machine le...

Picasso is a free open-source (Eclipse Public License) web application written in Python for rendering standard visualizations useful for analyzing convolutional neural networks. Picasso ships with occlusion maps and saliency maps, two visualizations which help reveal i...

The pycalphad software package is a free and open-source Python library for designing thermodynamic models, calculating phase diagrams and investigating phase equilibria using the CALPHAD method. It provides routines for reading thermodynamic databases and solving the m...