Academic software | OMGenomics podcast
Academic software has a bad reputation for being poorly maintained. We discuss our experiences maintaining our own bioinformatics tools and the systemic issues that influence the quality of academic software.
Topics
Lessons we've learned from maintaining our 8+ year old tools: Ginkgo, Assemblytics, SplitThreader, Ribbon.
Discussing career implications and systemic incentives of maintaining academic software.
How we build bioinformatics web apps today versus when we first started out.
Supporting users when you're not even in that field anymore.
Lots of embarrassing stories of bad software engineering in bioinformatics tools.
Join the discussion in the comments on YouTube. Questions from the episode:
For academics, do any other metrics get considered for your tools other than citations?
How do you cite tools you used that you didn't mention in the methods, e.g. samtools, parallel, IGV.
Do any programs match up volunteer experienced software engineers with scientists writing software?
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