ModStringSet-io: Read/write an ModStringSet object from/to a file

In FelixErnst/Modstrings: Working with modified nucleotide sequences

Read/write an ModStringSet object from/to a file

Description

Functions to read/write an ModStringSet object from/to a file.

Usage

readModDNAStringSet(
  filepath,
  format = "fasta",
  nrec = -1L,
  skip = 0L,
  seek.first.rec = FALSE,
  use.names = TRUE,
  with.qualities = FALSE
)

readModRNAStringSet(
  filepath,
  format = "fasta",
  nrec = -1L,
  skip = 0L,
  seek.first.rec = FALSE,
  use.names = TRUE,
  with.qualities = FALSE
)

writeModStringSet(
  x,
  filepath,
  append = FALSE,
  compress = FALSE,
  compression_level = NA,
  format = "fasta",
  ...
)

Arguments

filepath, format, nrec, skip, seek.first.rec, use.names, with.qualities, append, compress, compression_level, ...	See XStringSet-io for more details.
x	A ModStringSet object.

Value

A ModStringSet of the defined type.

Examples

seqs <- paste0(paste(alphabet(ModDNAString()), collapse = ""),
               c("A","G","T"))
seqs

set <- ModDNAStringSet(seqs)
set

file <- tempfile()
writeModStringSet(set, file)
read <- readModDNAStringSet(file)
read

FelixErnst/Modstrings documentation built on April 1, 2024, 2:21 p.m.