Feature_Calcualtion: Fragment feature calculation

In yujijun/neoantigenML: Machine Learning Methods for Neoantigen Filtering

Fragment feature calculation

Description

pepFakecode Rscript Coding peptide with specific rule of code. pepFrag Rscript to generate Fragment of peptides. \CodepepFragSign filtering all significant fragment PepFeatureDesc pepFeature description

Usage

PepFakeCode(peptideSet, coreN = parallel::detectCores(logical = F))

Arguments

peptideSet	A vector a group of peptides
coreN	The number of cores, default is all core in your machine
peptides	A vector a group of peptides
JudgeMatrix	A data.table with immune and non-immne info.
prop	A proportion of fragment in all peptides/
fragLenSet	A set of sliding window
featureSet	A vector to select feature,default is NULL
Fake	a logical TRUE or FALSE
FakeMatrix	A dataframe of fakacode info, if Fake is ture,then this parameter need to be gaven. Colnames
CutStart	a numeric of cut peptides from, default is NULL
Cutend	a number of cut peptides to, default is NULL

Examples

peptideSetFake <- PepFakeCode(peptideSet)

yujijun/neoantigenML documentation built on March 20, 2022, 11:59 p.m.