Too many differential peaks derived from FindMarkers() [Signac]
I am currently conducting scATAC-seq downstream analysis and just ran FindMarkers() comparing two biological conditions. In all, the number of diff. peaks turned out as ~5,000 which is rather high (the expected is around 500). How would I go about this? Should I intersect this with DEGs from an RNA experiment, etc.
**Yes, I have used the default parameters from Signac's FindMarkers() function.
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bioinformatics.girl •
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