anchorPositions: Determine Anchor Positions

In EpitopePrediction: Predict Binding Between Peptides and MHC Molecules

Description

Uses the information in the SMM matrices to predict anchor positions for a given MHC molecule. Specifically, SMM matrix columns are sorted by their variance, and the k columns with lowest variance are defined as anchor positions.

Usage

anchorPositions(mhc = "HLA-A-02:01", l = 9, k = 2)

Arguments

mhc	the mhc molecules.
l	the peptide length.
k	how many anchor positions to return.

Examples

## Investigate anchor positions for the HLA molecules A02:01 and B27:05
anchorPositions( "HLA-A-02:01" )
anchorPositions( "HLA-A-02:01", k=3 )
anchorPositions( "HLA-B-27:05" )

EpitopePrediction documentation built on May 2, 2019, 6:18 p.m.