hlaCexpressionAnalysis: HLA-C expression analys many variate phenotypes

In benabidlina/HLAfix: HLA Analysis Pipeline for large-scale Association Studies

Description

HLA-C expression analys many variate phenotypes

Usage

hlaCexpressionAnalysis(dataPath, phenoPath = NULL, statut = NULL,
  pcaPath = NULL, covarPath = NULL, outputFolder, outputFile,
  type = "pheno")

Arguments

dataPath	file with subject.ID and HLA-c expression "quantitative"
phenoPath	file with subject.ID and as many columns as quantitative phenotypes
statut	file conaining subject ID and Disease statut
pcaPath	pca result for PC1 and PC2
covarPath	must contains SubjectID followed by covariables
outputFolder	folder where to save the result
outputFile	Name for the result csv file with columns: subjectID Disease PC1 PC2 A A B B C C DRB1 DRB1 DQB1 DQB1
type	etiher "disease" for analysis in case/control or "pheno" for analysis with an quantitative phenotype

Value

Linear Regression result with the phenotypes or case/control and corrected either with PCs or with covariates

benabidlina/HLAfix documentation built on Aug. 20, 2021, 11:53 p.m.