Diagnostics for assessing genomic DNA contamination in RNA-seq data

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Documentation for package ‘gDNAx’ version 1.7.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

gDNAx-package	gDNAx: diagnostics for assessing genomic DNA contamination in RNA-seq data
allStrandModes	gDNAx class
allStrandModes-method	gDNAx class
classifyStrandMode	Identify strandMode
filterBAMtx	Filter alignments in a BAM file using a transcriptome
filterBAMtxFlag	Filter alignments in a BAM file using a transcriptome
gDNAdx	Calculate gDNA diagnostics
gDNAtx	Remove gDNA contamination from RNA-seq data
gDNAx	gDNAx: diagnostics for assessing genomic DNA contamination in RNA-seq data
gDNAx-class	gDNAx class
getDx	gDNAx class
getDx-method	gDNAx class
getIgc	gDNAx class
getIgc-method	gDNAx class
getInt	gDNAx class
getInt-method	gDNAx class
identifyStrandMode	Identify strandMode
plot-method	Calculate gDNA diagnostics
plotAlnOrigins	Calculate gDNA diagnostics
plotFrgLength	Calculate gDNA diagnostics
show	gDNAx class
show-method	gDNAx class
singleEnd	gDNAx class
singleEnd-method	gDNAx class
strandedness	gDNAx class
strandedness-method	gDNAx class
strandedness-method	Identify strandMode
strandMode	gDNAx class
strandMode-method	gDNAx class
strandMode<-	gDNAx class
strandMode<--method	gDNAx class
strnessByFeature	Identify strandMode
testBAMtxFlag	Filter alignments in a BAM file using a transcriptome