kfuku52 / amalgkit

RNA-seq data amalgamation for a large-scale evolutionary transcriptomics
BSD 3-Clause "New" or "Revised" License
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Obsoleting search_term_*.config #143

Closed kfuku52 closed 1 year ago

kfuku52 commented 1 year ago

I'm thinking to obsolete the following config files for amalgkit metadata, while the other optional config files are still vital (at least for now):

...and introduce --search_string that directly accepts an Entrez search string for a more flexible search term specification. The usage would look like:

amalgkit metadata --search_string '("platform illumina"[Properties]) AND ("type rnaseq"[Filter]) AND ("Nepenthaceae"[Organism]) NOT ("DNA"[Source])'

@Hego-CCTB Does it sound OK? I believe this update improves customizability, but please let me know if there are any concerns.

Hego-CCTB commented 1 year ago

Yes, this would be a huge improvement!

kfuku52 commented 1 year ago

done!

kfuku52 commented 1 year ago

Wiki has been updated: https://github.com/kfuku52/amalgkit/wiki/amalgkit-metadata