addListNameToReads: Prepend name attribute of a list to DNAStringSet

In hiReadsProcessor: Functions to process LM-PCR reads from 454/Illumina data

Description

Given a named listed DNAStringSet object returned from extractSeqs, the function prepends the sample name to read names.

Usage

addListNameToReads(dnaSet, flatten = FALSE)

Arguments

dnaSet	output from extractSeqs
flatten	should the output be unlisted? Default is FALSE.

Value

listed DNAStringSet with the names attribute prepended with the name of the list. If flatten is TRUE, then a DNAStringSet object

See Also

extractFeature, extractSeqs, getSectorsForSamples, write.listedDNAStringSet

Examples

load(file.path(system.file("data", package = "hiReadsProcessor"),
"FLX_seqProps.RData"))
samples <- c('Roth-MLV3p-CD4TMLVWell6-Tsp509I', 
'Roth-MLV3p-CD4TMLVWell6-MseI', 'Roth-MLV3p-CD4TMLVwell5-MuA')
seqs <- extractSeqs(seqProps, sector = '2', samplename = samples,
feature="genomic")
addListNameToReads(seqs, TRUE)

hiReadsProcessor documentation built on Nov. 8, 2020, 5:43 p.m.