Software journals

General

• IEEE Computer Society Digital Library

• Wiley Online Library

• Journal of Open Source Software

• Journal of Open Research Software (JORS)

• Journal of Software: Practice and Experience

• Nature Toolbox

• Research Ideas and Outcomes (RIO)

• SIAM Journal on Scientific Computing (SISC) Software section

• SoftwareX

Image processing

• Image Processing On Line

• Insight Journal

Biology

• American Journal of Human Genetics

• Artificial Life

• Psychonomic Society: Behaviour Research Methods

• Oxford Academic: Bioinformatics

• Bioinformatics and Biology Insights

• Biophysical Journal

• BMC Bioinformatics

• BMC Systems Biology

• Bone

• Computer Methods and Programs in Biomedicine

• Current Protocols in Bioinformatics

• Database: The Journal of Biological Databases and Curation

• Ecography

• eLife

• Epidemiology

• Evolutionary Bioinformatics

• F1000 Research

• Frontiers in Neuroinformatics

• Gigascience

• Methods in Ecology and Evolution

• Nature Methods

• Neurocomputing

• Neuroinformatics

• Nucleic Acids Research

• PeerJ - Life and Environment

• PLoS Computational Biology: Software collection

• PLoS ONE

• Trends in Parasitology

Chemistry

• International Journal of Quantum Chemistry

• Journal of Applied Crystallography

• Journal of Chemical Theory and Computation

• Journal of Chemical Information and Modelling

• Journal of Cheminformatics

• Journal of Computational Chemistry

• Molecular Simulation

• Wiley Interdisciplinary Reviews: Computational Molecular Science

Human and social sciences

• Digital Humanities Quarterly

• Journal of Artificial Societies and Social Simulation

• Journal of Economic Dynamics and Control

Engineering

• Advances in Engineering Software

• Coastal Engineering

• Renewable Energy

Computer science, mathematics and statistics

• ACM Transactions on Mathematical Software

• The Archive of Numerical Software

• Future Generation Computer Systems

• Journal of Machine Learning Research: Machine Learning Open Source Software track

• Journal of Multiscale Modelling and Simulation

• Journal of Parallel and Distributed Computing

• Journal of Software for Algebra and Geometry

• Journal of Statistical Software

• Knowledge-Based Systems

• LMS Journal of Computation and Mathematics

• The Mathematica Journal

• Mathematical Programming Computation

• Numerical Algorithms

• PeerJ Computer Science

• The R Journal

• Science of Computer Programming

• The Stata Journal

Physics and Earth Sciences

• AAS: The Astronomy Journal

• AAS: The Astrophysical Journal

• AAS: The Astrophysical Journal Supplement Series

• Astronomy and Computing

• Communications in Computational Physics

• Computational Astrophysics and Cosmology

• Computer Physics Communications

• Computers and Geosciences

• Computing and Software for Big Science

• Environmental Modelling & Software

• Geoscientific Model Development