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Victorian-Bioinformatics-Consortium / degust

Deprecated : Use https://github.com/drpowell/degust
GNU General Public License v3.0
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Export differential expression results as ODF format #33

Closed AMChalkie closed 8 years ago

AMChalkie commented 8 years ago

I'd really like to see export of differential expression into an ODF file (like GenePattern). Allows downstream functionality (limited I know), but it is a standard format and I think thats useful as a way to report supplementary data (if not just using the degust HTML).

AMChalkie commented 8 years ago

We've been writing some R code for outputting from degust R code => ODF file format. Will share with degust and limma people once we're happy with it.

AMChalkie commented 8 years ago

As promised/threatened here is code from Josh White to produce an odf file from the differential expression results. Please feel free to use with absolutely no obligations. Obviously we would love to see degust include this output in the future.

degust2odf.R.txt

drpowell commented 8 years ago

That looks great, I'll look to incorporate it soon

drpowell commented 8 years ago

Added ODF download support to new version of degust https://github.com/drpowell/degust2/commit/c239dd66fe0d733d36ed484c8a85066303626a5d

Try out beta version here : http://dna.med.monash.edu:4000/

AMChalkie commented 8 years ago

Hi David,

Getting a failed/network error when trying to download tsv/odf/etc. Due to not being on Monash intranet?

/alistair

drpowell commented 8 years ago

I don't think so, it is all local in the browser. What browser are you using? Can you share a link that isn't working? (email if you want to keep it private)

AMChalkie commented 8 years ago

Chrome isn't working. Safari is - but doesn't pop up a save-as.

drpowell commented 8 years ago

Should now be working in chrome. I couldn't figure out how to make it popup a "save as" in safari