getPID: getPID

In yufree/xMSanalyzer: xMSanalyzer: R package for data analysis, comparison, and annotation of metabolomics data.

Description

Evaluate feature consistency based on PID. PID is defined as percent ratio of absolute intensity difference to mean intensity deviation to mean intensity. Only samples with no missing values within technical replicates are used to evaluate PID.

Usage

getPID(curdata, alignment.tool, missingvalue)

Arguments

curdata	Feature alignment output matrix from apLCMS or XCMS with sample intensities
alignment.tool	Name of the feature alignment tool eg: "apLCMS" or "XCMS"
missingvalue	How are the missing values represented? eg: 0 or NA

Value

Matrix of feature consistency based on PID with columns: mz: m/z of the feature min: minimum PID between technical replicates across all samples first_quartile: 25th percentile PID median: 50th percentile PID mean: average of cofficient of variations between technical replicates per sample across all samples third_quartile: 75th percentile PID max: maximum PID between technical replicates across all samples

Author(s)

Karan Uppal <[e-mail]>

yufree/xMSanalyzer documentation built on May 4, 2019, 6:35 p.m.