check.mz.in.replicates: check.mz.in.replicates

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

Description

Function to find metabolic characteristics of individuals.

Usage

check.mz.in.replicates(dataA, min.samps = 2, min.reps = 2, num_replicates = 3)

Arguments

dataA	Sample intensity matrix from apLCMS or XCMS. This should only include columns corresponding to samples. All other information such as m/z, retention time, etc. should be deleted.
min.samps	min.samps: minimum number of samples for which a feature signal should be detected in at least min.reps replicates~~
min.reps	minimum proportion of replicates in which a signal is present (eg: 0.5 or 1)
num_replicates	number of replicats for each sample (eg: 2)

Details

This utility allows identification of rare features that are present in only some biological samples, but are present in majority of the analytical replicates of individual samples as a result of unique environmental exposure. The min.samps and min.reps are user defined values for defining the minimum number of samples and minimum proportion of replicates in which a feature should be detected.

Value

Filtered matrix of features with sample intensities

Author(s)

Karan Uppal <[e-mail]>

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