get_topology_filename: Get the name of a topology file

In richelbilderbeek/bbbq: The Bilderbeek Bianchi and Bogaart Question

Get the name of a topology file

Description

Get the name of a topology file

Usage

get_topology_filename(
  target_name = "human",
  proteome_type = "full",
  keep_selenoproteins = TRUE,
  topology_prediction_tool
)

Arguments

target_name	abbreviated name of organism or virus. Use get_target_names to get the valid values. Use get_target_english_name to get the English name of a target.
proteome_type	type of proteome, must be either full or representative
keep_selenoproteins	keep the selenoproteins. The reason to discard these, is that TMHMM cannot deal with selenoproteins.
topology_prediction_tool	tool to predict the topology of a membrane protein. Possible values are: mhcnuggetsr pureseqtmr, which uses PureseqTM mhcnuggetsr tmhmm, which uses TMHMM

richelbilderbeek/bbbq documentation built on July 27, 2023, 2:15 a.m.