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YosefLab / Compass

In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
BSD 3-Clause "New" or "Revised" License
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Using Compass with Bulk RNA-seq #69

Closed gepmat closed 2 years ago

gepmat commented 2 years ago

Hi, I would like to know if that is possible to use Compass with Bulk RNA-seq and not single cell only ? Thanks, Gepmat

allonw commented 2 years ago

Yes, as we write in the Discussion section of the paper, it's sound to run it on bulk data (just set the lambda parameter to 0 to prevent information sharing between samples). The only problem could be lack of statistical power since there are fewer observations (bulk samples rather than cells)

hope this helps!