Coverage visualization package for R

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Documentation for package ‘CoverageView’ version 1.47.0

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

Help Pages

CoverageView-package	Coverage visualization package for R
cov.interval	arithmetic operation on an interval
cov.interval-method	arithmetic operation on an interval
cov.matrix	Compute a coverage matrix
cov.matrix-method	Compute a coverage matrix
CoverageBamFile	Class '"CoverageBamFile"'
CoverageBamFile-class	Class '"CoverageBamFile"'
CoverageBigWigFile	Class '"CoverageBigWigFile"'
CoverageBigWigFile-class	Class '"CoverageBigWigFile"'
CoverageView	Coverage visualization package for R
DF_H3K36me3	Example of a coverage matrix using the ChIP-seq data for the H3K36me3 histone modification experiment
DF_H3K36me3_control	Example of a coverage matrix using the control replicate for the ChIP-seq data for the H3K36me3 histone modification experiment
DF_H3K4me3	Example of a coverage matrix using the ChIP-seq data for the H3K4me3 histone modification experiment
DF_H3K4me3_ctl	Example of a coverage matrix using the control replicate for the ChIP-seq data for the H3K4me3 histone modification experiment
DF_H3K4me3_nopeaks_ratios	Example of a matrix with the ratio of the coverages using the ChIP-seq data for the H3K4me3 histone modification experiment
draw.heatmap	Draw a coverage heatmap
draw.heatmap-method	Draw a coverage heatmap
draw.profile	Draw a coverage profile
draw.profile-method	Draw a coverage profile
export.wig	Generates a WIG file containing the coverage values for a certain genomic interval
export.wig-method	Generates a WIG file containing the coverage values for a certain genomic interval
FoxA1_chr19	Example of a coverage matrix using the ChIP-seq data for the FoxA1 transcription factor experiment
genome.covplot.cumdepth	Generates a cumulative genome coverage plot
genome.covplot.cumdepth-method	Generates a cumulative genome coverage plot
genome.covplot.depth	Generates a genome coverage plot
genome.covplot.depth-method	Generates a genome coverage plot
path-method	Class '"CoverageBamFile"'
reads_mapped-method	Class '"CoverageBamFile"'
run_type-method	Class '"CoverageBamFile"'
show-method	Class '"CoverageBamFile"'
show-method	Class '"CoverageBigWigFile"'
write.profile	Write coverage values into a file
write.profile-method	Write coverage values into a file