readQualitySample: Sample read qualities from a list
In ChIPsim: Simulation of ChIP-seq experiments

Description Usage Arguments Details Value Author(s)

Given a read sequence and a list of read quality scores this function returns a (possibly truncated) quality score of the same length as the read.

1	readQualitySample(read, qualities, checkLength = TRUE, ...)

`read`	A sequence read.
`qualities`	List of sequence read quality scores.
`checkLength`	Flag indicating whether the length of quality scores should be checked to ensure that they are at least as long as the read. If `qualities` contains entries shorter than `read` this has to be `TRUE`, but see below.
`...`	Further arguments, currently not used.

Using checkLength = TRUE leads to a substantial decrease in performance and is impractical for a large simulation. To avoid this slow down it is recommended to remove short sequences from qualities beforehand so that checkLength = FALSE can be used.

An read quality score string of the same length as read.

Peter Humburg

ChIPsim documentation built on Nov. 8, 2020, 8:09 p.m.