nonOverlapRNAseq_solo: Annotating the Non-Overlapping genes with RNAseq expression

In VilainLab/Nanotator: Next generation structural variant annotation and classification

Annotating the Non-Overlapping genes with RNAseq expression

Description

Annotating the Non-Overlapping genes with RNAseq expression

Usage

nonOverlapRNAseq_solo(gnsNonOverlap, SVID, RNASeqData, pattern_Proband = NA)

Arguments

gnsNonOverlap	character. Vector containing non-overlapping genes.
SVID	character. SV Index ID.
RNASeqData	dataFrame. RNAseq data with gene names.
pattern_Proband	character. Pattern for proband.

Value

Dataframe containing TPM read counts of overlapping genes.

Examples

RNASeqDir = system.file("extdata", package="nanotatoR")
returnMethod="dataFrame"
datRNASeq <- RNAseqcombine_solo(RNASeqDir = RNASeqDir,
returnMethod = returnMethod)
gnsNonOverlap <- c("DDX11L1", "MIR1302-2HG", "OR4G4P")
SVID = 397
datgnnonovrlap <- nonOverlapRNAseq_solo(gnsNonOverlap = gnsNonOverlap, 
SVID = SVID, RNASeqData = datRNASeq,
pattern_Proband = "*_P_*")

VilainLab/Nanotator documentation built on Aug. 2, 2024, 8:45 p.m.