generateCoverageDF_ncRNAmappings: Generate coverage data frame for specific candidates

Description Usage Arguments Value

Description

This method returns a data frame containing coverage values for each position. It is intended for ncRNAmapping results. For contigs please see: generateCoverageDF_contigs

Usage

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generateCoverageDF_ncRNAmappings(ncRNAMappingsDF, bedgraphMapping_plusL,
  bedgraphMapping_minusL, sampleNames)

Arguments

ncRNAMappingsDF

Selected candidates from the result of differential expression analysis from DESeq2 combined with the minimum annotation dataframe

bedgraphMapping_plusL

the cmdResult object of the bedgraph plus mapping (genomeCovNcRNAMapping_plusL)

bedgraphMapping_minusL

the cmdResult object of the bedgraph minus mapping (genomeCovNcRNAMapping_minusL)

sampleNames

names of the samples from samplesInfo table

Value

data.frame containing the read counts for each position in order to create a histogram of read counts for each ncRNA


SimonSchafferer/RNASeqUtility documentation built on May 9, 2019, 1:34 p.m.