DEScan2: a good alternative to DiffBind package. скачать в хорошем качестве

DEScan2: a good alternative to DiffBind package.

DiffBind is probably the most frequently used R package to do differential analysis of genomic peaks (like ATACseq, ChIPseq, Cut&Tag etc.). It requires 3 samples per group at least and uses integrated edgeR or DESeq2 for the differential analysis. DEScan2 package does only the first part of the business, namely it creates a unified table of counts per peaks, the rest you can do with the same edgeR or DESeq2 on your own. For annotation you can use ChIPpeakAnno in both cases. Here I explain all steps in detail (show my R script with the real data). #r #diffbind #descan2 #atacseq #chipsec #cutntag #edger #deseq2 #chippeakanno