get_shape_df: Beta shape parameters for (one peptide):(all HLA)...

In liesb/BIITE: Bayesian Immunogenicity Inference Tool for ELISpot

Description

For a given peptide, and for all HLAs, compute the shape parameters of the prior distribution for that pHLA combination.

Usage

get_shape_df(netmhc.df, pep, mode_F = 0.3, sd_F = 0.1, mode_T = 0.7,
  sd_T = 0.2)

Arguments

netmhc.df	Dataframe with booleans for each pHLA combination: do we think it is immunogenic or not? This can come from predicitve data (hence the name).
pep	Peptide currently being processed
mode_F	mode for the Beta distribution for a pHLA combination that has a negative prior (pHLA considered to be non-immunogenic)
sd_F	standard deviation for a pHLA combination that has a negative prior (pHLA considered to be non-immunogenic)
mode_T	mode for the Beta distribution for a pHLA combination that has a positive prior (pHLA considered to be immunogenic)
sd_T	standard deviation for a pHLA combination that has a positive prior (pHLA considered to be immunogenic)

liesb/BIITE documentation built on May 21, 2019, 6:13 a.m.