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martinjzhang / scDRS

Single-cell disease relevance score (scDRS)
https://martinjzhang.github.io/scDRS/
MIT License
98 stars 11 forks source link

perform-downstream outputs zero significant cells #64

Closed gwentea closed 10 months ago

gwentea commented 1 year ago

Dear Author,

Thank you for such an informative tool. When running scDRS compute-score, the command output and results seemed normal (see umaps below) image image

However, when running perform-downsteam, the number of significant cells is basically 0, resulting in all blank cells on the heat map (see below). image image

We are trying to locate the possible causes and what can be done to improve the results. It would be great if you could please provide any suggestions! Thanks in advance!

martinjzhang commented 1 year ago

Hi,

Thank you for sharing the results. The results look normal to me. scDRS may not have sufficient power in some cases, such as https://github.com/martinjzhang/scDRS/issues/3 or https://github.com/martinjzhang/scDRS/issues/30

Imputing the scRNA-seq data may help increase the power, such as https://github.com/martinjzhang/scDRS/issues/32

Best, Martin