predict_topology: Predict the topology of a proteome

In pureseqtmr: Predict Transmembrane Protein Topology

Description

Predict the topology of a proteome

Usage

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

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.