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hemberg-lab / SC3

A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments
http://bioconductor.org/packages/SC3
GNU General Public License v3.0
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Add column colouring to sc3_plot_markers #30

Closed kieranrcampbell closed 7 years ago

kieranrcampbell commented 7 years ago

It would be really nice to have an additional argument passed to sc3_plot_markers that accepted either an N length vector (for N cells) or a column name of pData(sceset) that added column colouring to the resulting heatmap, so you can compare the consistency of the clustering with a known covariate.

wikiselev commented 7 years ago

Hi Kieran! Thanks for your suggestion, this is exactly what I am working on right now. In the next release you should be able to visualise any column from the pData(sceset) on the SC3 heatmaps.

wikiselev commented 7 years ago

This is now done. Please reinstall SC3 from GitHub (Bioconductor build might happen only next week). Updated manual is here: https://cdn.rawgit.com/hemberg-lab/SC3/master/vignettes/my-vignette.html

Thanks again for your suggestion!

Cheers, Vlad

kieranrcampbell commented 7 years ago

Thanks, this is excellent. Kieran