predict_topology: Predict the topology of a proteome

Description Usage Arguments Value Author(s) Examples

View source: R/predict_topology.R

Description

Predict the topology of a proteome

Usage

1
2
3
4
5
predict_topology(
  fasta_filename,
  folder_name = get_default_pureseqtm_folder(),
  topology_filename = tempfile(fileext = ".top")
)

Arguments

fasta_filename

path to a FASTA file

folder_name

superfolder of PureseqTM. The superfolder's name is /home/[user_name]/.local/share by default, as can be obtained by get_default_pureseqtm_folder

topology_filename

name of the file to save a protein's topology to

Value

a tibble with the columns 'name' and 'topology', where the 'name' column hold all the proteins' names, and 'topology' contains all respective topologies.

Author(s)

Richèl J.C. Bilderbeek

Examples

1
2
3
4
if (is_pureseqtm_installed()) {
  fasta_filename <- get_example_filename("1bhaA.fasta")
  predict_topology(fasta_filename)
}

pureseqtmr documentation built on July 30, 2020, 5:13 p.m.