getSmallMolSpectra: Retrieve small molecule and matrix peak lists and make...

In chasemc/tempRepo: Protein and small molecule analysis of bacteria by MALDI-TOF MS

Description

Retrieve small molecule and matrix peak lists and make consensus peak lists

Usage

getSmallMolSpectra(pool, sampleIDs = NULL, dendrogram, brushInputs,
  matrixIDs = NULL, peakPercentPresence, lowerMassCutoff,
  upperMassCutoff, minSNR)

Arguments

pool	pool
sampleIDs	character vector of IDs (currently not used)
dendrogram	protein dendrogram that was brushed
brushInputs	brusked dendrogram outputs
matrixIDs	sampleID that will be used as a matrix
peakPercentPresence	peaks whose frequency of occurence in replicates below this are dropped
lowerMassCutoff	lower mass to retain
upperMassCutoff	upper mass to retain
minSNR	minimum SNR a peak must have to be retained

Value

a list containg two lists of MALDIquant peak objects "samplePeaks" and "matrixPeaks"

chasemc/tempRepo documentation built on May 28, 2019, 7:32 p.m.