tx_get_metageneAtCDS: Get metagene at CDS

In AngelCampos/tx_tools: An R package facilitating analysis of RNA modifications, structures, and interactions

Get metagene at CDS

Description

Get metagene at CDS

Usage

tx_get_metageneAtCDS(txDT, geneAnnot, colVars, CDS_align, upFlank, doFlank)

Arguments

txDT	data.table. A table as output by the tx_makeDT_coverage(), tx_makeDT_nucFreq() or tx_makeDT_covNucFreq() functions.
geneAnnot	GRanges. Gene annotation as loaded by tx_load_bed().
colVars	character. Names of columns for which values will be extracted
CDS_align	character. Either "start", "end", or "spliceSite" depending on the desired alignment, either to CDS start, CDS end, or splicing sites, respectively.
upFlank	numeric. Up-stream flank length
doFlank	numeric. Down-stream flank length

Value

list of matrices for each colVar

AngelCampos/tx_tools documentation built on Sept. 17, 2024, 1:27 a.m.