ImmunoDominantRegions: ImmunoDominantRegions

In elmerfer/RAPInetMHCpan: an R API to netMHCpan and netMHCIIpan softwares for neural network prediction of peptide binders

Description

generate a ggplot2 logo of the evaluated papetide and its binding regions (Core) allowing the identification of the Core with its deleted (bulging out) regions and predicted insertion sites

Usage

ImmunoDominantRegions(seq, eDB, pr = c("inverse", "count"), nCores)

Arguments

seq	a sequence from seqinr::read.fasta
eDB	a data frame or RAPIMHCI or RAPIMHCII class object
pr	The rank level. (0.5 by default)if not missing, the level of selected top rank. if pr <= 0 it just counts the AA presence in a peptide candidate
nCores	(integer) number of cores to use, if missing it will be automatically set

Value

a ggplot2 object

Examples

## Not run: 
seq <- seqinr::read.fata(file = ........)
ImmunoDominantRegions(seq = seq, eDB = res)

## End(Not run)

elmerfer/RAPInetMHCpan documentation built on Sept. 17, 2021, 2:14 p.m.