get_ic50_threshold: Get the threshold IC50 value

In richelbilderbeek/bbbq: The Bilderbeek Bianchi and Bogaart Question

Get the threshold IC50 value

Description

Get the threshold IC50 value for a certain percentile. For examples, IC50s below this value may be defined as a binder

Usage

get_ic50_threshold(peptide_length, haplotype, percentile, ic50_prediction_tool)

Arguments

peptide_length	length of the peptide in amino acids
haplotype	one MHC-I or MHC-II haplotype
percentile	how low the IC50 must be for the protein to be considered a binder. For example, 0.02 denotes that the protein must have an IC50 in the lowest 2 percent range. The default value is returned by get_ic50_percentile_binder.
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

Author(s)

Richèl J.C. Bilderbeek

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