normalize_metabolite_specific: variable-specific normalization (QC-based signal correction)

In FanqianYin/omicstoolkits: Integrated bioinformatics toolkits for quantitative omics data analysis

Description

variable-specific normalization (QC-based signal correction)

Usage

normalize_metabolite_specific(
  expData,
  design,
  method,
  rf.ntree = 500,
  loess.span = 0.5,
  loess.degree = 2,
  ...
)

Arguments

expData	data.frame: row as sample, colum as metabolite(or features/variables)
design	data.frame, including 4 columns: "sample", "batch", "class", "order" (run order). QC sample as "QC" in column "class".
method	QC-based signal correction methods, including: qc.mean, qc.median, loess (QCRLSC), random forest (QCRFSC), QC-SVR, IORLSC, IORFSC
rf.ntree	ntree par for randomForest::randomForest()
loess.span	span par for loess()
loess.degree	degree par for loess()
...

FanqianYin/omicstoolkits documentation built on Jan. 3, 2022, 5:57 p.m.