plotReads: Plot compact representation of read counts on a chromosome

In ChIPseqR: Identifying Protein Binding Sites in High-Throughput Sequencing Data

Description

Creates an image of all read counts for a chromosome.

Usage

.plotReads(x, scale = c("total", "ratio"), log = TRUE, ...)

Arguments

x	A two column matrix with read counts (as produced by strandPileup).
scale	Character string indicating whether to plot the total number of reads on both strands or the ratio between them.
log	Logical indicating whether to use log read counts.
...	Further plotting arguments.

Details

The read counts (or read count ratios) are plotted as a Hilbert curve using hilbertImage.

Value

Called for its side effect.

Author(s)

Peter Humburg

References

Anders, Simon, 'Visualization of genomic data with the Hilbert curve', Bioinformatics , vol. 25, no. 10, 1231-1235 (2009).

See Also

strandPileup, hilbertImage

ChIPseqR documentation built on Nov. 8, 2020, 6:49 p.m.