bt.nuc: Profiles the nucleotide content of intervals in a fasta file.
In PhanstielLab/bedtoolsr: Bedtools Wrapper

bt.nuc

R Documentation

Profiles the nucleotide content of intervals in a fasta file.

Profiles the nucleotide content of intervals in a fasta file.

bt.nuc(
  fi,
  bed,
  s = NULL,
  seq = NULL,
  pattern = NULL,
  C = NULL,
  fullHeader = NULL,
  output = NULL
)

`fi`	<fasta>
`bed`	<bed/gff/vcf>
`s`	Profile the sequence according to strand.
`seq`	Print the extracted sequence
`pattern`	Report the number of times a user-defined sequence is observed (case-sensitive).
`C`	Ignore case when matching -pattern. By defaulty, case matters.
`fullHeader`	Use full fasta header. - By default, only the word before the first space or tab is used.
`output`	Output filepath instead of returning output in R.