summary/histogram before submission

qiita-spots / qiita

Qiita - A multi-omics databasing effort

http://qiita.microbio.me

BSD 3-Clause "New" or "Revised" License

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summary/histogram before submission #6

Closed antgonza closed 9 years ago

antgonza commented 10 years ago

(from Se Jin and LukeU) Currently, there is no easy way to decide on rarefaction level so add a summary/histogram of seqs/samples before selecting parameters for analyses.

squirrelo commented 10 years ago

http://windelbouwman.wordpress.com/2013/07/02/matplotlib-and-tornado/

Looks like this is pretty easily doable.

adamrp commented 10 years ago

I think this will require going through each study's processed data/biom file; it would be good to put this in a database table, but currently I don't think there is a good place to put this information. We would need a "processed_data_stats" table or something, which might differ depending on data_type_id...

wasade commented 10 years ago

Could compute once and store in the biom file, might minimize integrity concerns. The format spec doesn't disallow other attributes or datasets, so could make it easily queriable (might actually be good to push to biom so summarize-table first looks for summary details)

antgonza commented 9 years ago

This issue has been superseded by: https://github.com/biocore/qiita/issues/650.