readFaDir: Read in a bunch of fasta files in a target directory

In sherrillmix/dnar: Miscellaneous functions to deal with bioinformatic analyses

Read in a bunch of fasta files in a target directory

Description

Read in a bunch of fasta files in a target directory

Usage

readFaDir(
  dir = ".",
  suffix = "\\.(fn?a|fasta)$",
  recursive = FALSE,
  vocal = FALSE,
  ...
)

Arguments

dir	target directory
suffix	regex to select file names
recursive	if TRUE recurse through data directory
vocal	if TRUE display status message for each file loading
...	additional arguments to read.fa

Value

data.frame with columns name, seq and file

Examples

tmpDir<-tempdir()
files<-file.path(tmpDir,sprintf('%d.fa',1:9))
for(ii in files){
  tmp<-generateFasta(5,10:20,c('A','C','T','G'))
  write.fa(tmp$name,tmp$seq,ii)
}
seqs<-readFaDir(tmpDir)

sherrillmix/dnar documentation built on July 18, 2022, 10:07 p.m.