predict_ic50s: Predict IC50s

In richelbilderbeek/bbbq: The Bilderbeek Bianchi and Bogaart Question

Predict IC50s

Description

Predict IC50s

Usage

predict_ic50s(
  protein_sequence,
  peptide_length,
  haplotype,
  ic50_prediction_tool,
  mhcnuggetsr_peptides_path = mhcnuggetsr::create_temp_peptides_path()
)

Arguments

protein_sequence	a protein sequence
peptide_length	length of the peptide in amino acids
haplotype	one MHC-I or MHC-II haplotype
ic50_prediction_tool	tool to predict the IC50 from a peptide. Possible values are: mhcnuggetsr mhcnuggetsr, which uses MHCnuggets mhcnuggetsr netmhc2pan, which uses NetMHC2pam EpitopePrediction uses EpitopePrediction
mhcnuggetsr_peptides_path	path to a temporary file to create peptides, as needed by mhcnuggetsr, which is create_temp_peptides_path by default

Author(s)

Richèl J.C. Bilderbeek

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