Added alternative go.env construction with biomaRt and GO.db

hms-dbmi / scde

R package for analyzing single-cell RNA-seq data

http://pklab.med.harvard.edu/scde

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Added alternative go.env construction with biomaRt and GO.db #10

Closed jenzopr closed 8 years ago

jenzopr commented 8 years ago

The biomaRt library directly connects to the Ensembl BioMart service and does not depend on updates for the org.Hs.eg.db library. Furthermore, for me it was easier to switch from gene names to Ensembl IDs as rownames(cd) with this code.

See preview here: http://jenzopr.github.io/scde/pagoda.html Best, Jens

JEFworks commented 8 years ago

Thanks, Jens! Looks great!

I may eventually move this to a separate tutorial page on how to customize the analysis workflow. I'd like you to get credit for this addition though, so I may ask you to make another pull request there.

Thanks again!

jenzopr commented 8 years ago

Yep, would be fine for me. Just let me know :+1: