make preparing samples.tsv easier

dib-lab / elvers

(formerly eelpond) an automated RNA-Seq workflow system

https://dib-lab.github.io/elvers/

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make preparing samples.tsv easier #41

Open ctb opened 5 years ago

ctb commented 5 years ago

I spent a frustrating time debugging tabs vs spaces vs...

a few thoughts:

allow yaml input
allow csv input
allow excel input (??)
provide a utility script for checking it

ctb commented 5 years ago

actually, another fun idea -- on reporting, provide an HTML output that links all the samples to their various individual outputs (orig file, trimmed file, fastqc output for either/both, etc.)

bluegenes commented 5 years ago

yes! Been wanting this for a while. Excel should be doable, because pandas, but yaml would be nice. Also utility scripts for checking and/or converting. Need to also think about how to best enable large-scale analyses, e.g. MMETSP, where we have a large number of files that we want to assemble separately, but don't want to provide ~678 diff tsv files