Ten simple rules for making research software more robust

1,500 scientists lift the lid on reproducibility

(2016) Monya Baker   NATURE

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update

(2016) Enis Afgan et al.   NUCLEIC ACIDS RESEARCH

A Quick Introduction to Version Control with Git and GitHub

(2016) John D. Blischak et al.   PLoS Computational Biology

A systematic literature review on the barriers faced by newcomers to open source software projects

(2015) Igor Steinmacher et al.   INFORMATION AND SOFTWARE TECHNOLOGY

Toward effective software solutions for big biology

(2015) Pjotr Prins et al.   NATURE BIOTECHNOLOGY

Tools and data services registry: a community effort to document bioinformatics resources

(2015) Jon Ison et al.   NUCLEIC ACIDS RESEARCH

Engineering bioinformatics: building reliability, performance and productivity into bioinformatics software

(2015) Brendan Lawlor et al.   Bioengineered

Best Practices for Scientific Computing

(2014) Greg Wilson et al.   PLOS BIOLOGY

Ten recommendations for creating usable bioinformatics command line software

(2013) Torsten Seemann   GigaScience

Virtual Appliances, Cloud Computing, and Reproducible Research

(2012) Bill Howe   COMPUTING IN SCIENCE & ENGINEERING

Next-generation sequencing data interpretation: enhancing reproducibility and accessibility

(2012) Anton Nekrutenko et al.   NATURE REVIEWS GENETICS

A Quick Guide to Organizing Computational Biology Projects

(2009) William Stafford Noble   PLoS Computational Biology

Dealing with Risk in Scientific Software Development

(2008) Rebecca Sanders et al.   IEEE SOFTWARE