Filter a count table using a table of DE from wrapperDeseq2

This function generates counts, FPKM and TPM tables including only the differentially expressed genes present in the set of DE generated with wrapperDeseq2.

filterCounts(data.folder, type = c("gene", "isoform", "mirna"))

Arguments

data.folder,

a character string indicating the paths of rnaseqCounts/mirnaCounts output folders

type,

character with three options: gene, isoform, mirna.

Value

Returns counts, fpkm, tpm data frames for gene and isoforms in countsDE.txt, log2fpkmDE.txt and in log2TPMDE.txt

Author

Raffaele Calogero

Examples