run_netmhcpan: Run NetMHCpan

In tzina97/netMHCpanW: Interface to 'NetMHCpan'

Run NetMHCpan

Description

Run NetMHCpan

Usage

run_netmhcpan(
  fasta_filename,
  alleles = "HLA-A0101",
  peptide_length = 15,
  netmhcpan_folder_name = get_default_netmhcpan_folder(),
  temp_xls_filename = netmhcpan::create_temp_xls_filename()
)

Arguments

fasta_filename	the name of a FASTA file with protein sequences
alleles	one or more alleles, e.g. HLA-A0101. See get_netmhcpan_alleles for a full list
peptide_length	length of a peptide
netmhcpan_folder_name	the folder (to be) used by NetMHCpan. From this location, a subfolder for NetMHCpan is created. Use get_default_netmhcpan_folder to see the location of the default NetMHCpan folder. Use get_default_netmhcpan_subfolder to see the location of the default NetMHCpan subfolder.
temp_xls_filename	name for a temporary xls file, which will be deleted automatically

Value

a data frame with the NetMHCpan results

Author(s)

Richèl J.C. Bilderbeek

tzina97/netMHCpanW documentation built on April 26, 2022, 1:18 a.m.