runBlatNoServer: Run blat from blat executable instead of gfserver/client

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

Run blat from blat executable instead of gfserver/client

Description

Run blat from blat executable instead of gfserver/client

Usage

runBlatNoServer(
  reads = NULL,
  refs,
  blatArgs = "",
  outFile = "out.blat",
  blat = "blat",
  tmpDir = tempdir(),
  readFile = NULL
)

Arguments

reads	named vector of sequences
refs	named vector of references
blatArgs	string of arguments for blat
outFile	file to write blat to
blat	path to blat program
tmpDir	a directory to write tempfiles to
readFile	file to use instead of reads (will be deleted)

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