BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage


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Documentation for package ‘BadRegionFinder’ version 1.24.0

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BadRegionFinder-package BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage
Bad Coverage BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage
BadRegionFinder BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage
Coverage Classifier BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage
determine Coverage Quality Classifies the determined coverage
determine Quantiles Determines basewise user-defined quantiles
determine Regions Of Interest Determines the regions of interest
determineCoverage Determines the coverage (recommended for whole-genome analyses)
determineCoverageQuality Classifies the determined coverage
determineQuantiles Determines basewise user-defined quantiles
determineRegionsOfInterest Determines the regions of interest
plot Detailed Plots a more detailed overview of the coverage quality
plot Summary Plots a summary of the coverage quality
plot Summary Genes Plots a summary of the coverage quality concerning the genes only
plotDetailed Plots a more detailed overview of the coverage quality
plotSummary Plots a summary of the coverage quality
plotSummaryGenes Plots a summary of the coverage quality concerning the genes only
report Bad Regions Detailed Gives a detailed report on the coverage quality
report Bad Regions Genes Sums up the coverage quality on a gene basis
report Bad Regions Summary Sums up the coverage quality
reportBadRegionsDetailed Gives a detailed report on the coverage quality
reportBadRegionsGenes Sums up the coverage quality on a gene basis
reportBadRegionsSummary Sums up the coverage quality