FormatPeakList: Format Peak List

In xia-lab/MetaboAnalystR3.0: An R Package for Comprehensive Analysis of Metabolomics Data

Description

This function formats the CAMERA output to a usable format for MetaboAanlyst.

Usage

FormatPeakList(
  annotPeaks,
  annParams,
  filtIso = TRUE,
  filtAdducts = FALSE,
  missPercent = 0.5
)

Arguments

annotPeaks	The object created using the PerformPeakAnnotation.
annParams	The object created using the SetAnnotationParam function, containing user's specified or default parameters for downstream raw MS data pre-processing.
filtIso	Logical, filter out all isotopes except for [M]+ for positive ion mode and [M]- for negative ion mode. By default it is set to true.
filtAdducts	Logical, filter out all adducts except [M+H]+ for positive ion more and [M-H]- for negative ion mode. By default it is set to false.
missPercent	Numeric, specify the threshold to remove features missing in X% of samples. For instance, 0.5 specifies to remove features that are missing from 50% of all samples per group. Method is only valid when there are two groups.

Author(s)

Jasmine Chong [e-mail], Mai Yamamoto [e-mail], and Jeff Xia [e-mail] McGill University, Canada License: GNU GPL (>= 2)

xia-lab/MetaboAnalystR3.0 documentation built on May 6, 2020, 11:03 p.m.