runBlat: Start a blat server, run blat on file and kill blat server

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

Start a blat server, run blat on file and kill blat server

Description

Start a blat server, run blat on file and kill blat server

Usage

runBlat(
  faFile,
  gfClientOptions = "",
  outFile = gsub("\\.fn?a$", ".blat", faFile),
  gfClient = "gfClient",
  ...
)

Arguments

faFile	path to fasta file for alignment
gfClientOptions	arguments for gfClient
outFile	file to write blat results to
gfClient	path to gfClient program
...	arguments for startBlat

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