load_and_clean_PAGODA_data: load and clean PAGODA iggdata

In pmtran5884/Glycancc: Community Clustering of Anti-Carbohydrate Antibody data

load and clean PAGODA iggdata

Description

This function loads the serum anti-carbohydrate antibody data from the PAGODA cohort along with the PAGODA phenotype data It keeps only the earliest measured sample for each individual and performs background thresholding

Usage

load_and_clean_PAGODA_data(
  fileloc,
  removeoutliers = F,
  backgroundThesholdval = 1,
  log2 = F
)

Arguments

fileloc	Path to PAGODA data
removeoutliers	Logical indicating whether or not to remove outliers in the iggdata
backgroundThesholdval	Value for background thresholding of Iggdata
log2	Logical indicating whether or not to log2 transform the iggdata

Value

a list containing two data frames, igg and pheno

pmtran5884/Glycancc documentation built on Oct. 5, 2022, 10:14 a.m.