Bioinformatics Pathway Article

[tefirman]

Proposed Domain
I assume this would go under "Data Science", but an argument could be made for "Scientific Computing"...

Content Summary
Not urgent at all, but I recently met with a postdoc for a Computing Data House Call, specifically with regards to how to run bioinformatics analyses on the Fred Hutch cluster. She basically requested word-for-word what we have been thinking of for "Pathways" articles: "I've attended all the DaSL courses, read all the individual wiki articles, I just don't know how to link them together, i.e. what minimal set of things you need to know to successfully run something on the cluster."

As such, I think it would be useful to have a "Pathways" article that guides a user through how to submit a basic bioinformatics analysis (even just alignment):

1. Log in to the cluster.
2. Upload your data to /fh/fast/ using File Explorer
3. Write a super simple sbatch script using bwa
4. Submit the analysis via sbatch
5. Check job status via squeue
6. Locate your output data via File Explorer

Might also help to tease WDL scripts & PROOF at the end as an alternative for more complex workflows.

Local Content Expert(s)
I'm guessing myself and @sitapriyamoorthi for the core content, but would need review from SciComp.

[atombaby]

There is this pathway which covers the middle of this process.