dpeaqms.extract.sample: Extract samples from the output of dpeaqms

In dpeaqms: Differential Protein Expression Analysis using Quantitative Mass Spectrometry Data (dpeaqms)

Description

This function will convert the output of the function dpeaqms.mcmc, i.e. a sample from the posterior distribution of model parameters, into a text file or series of text files if complete output is specified

Usage

dpeaqms.extract.sample(msmsdata, mcmc_sample, numberOfMCMCSamples,
                       controlGroup,  referenceSampleID,
	               summaryOnly, outputprefix)

Arguments

msmsdata	The MS/MS data in tabular format consisting of one reporter ion per line with the fields corresponding to Protein, Intensity, Peptide Sequence , Replicate Number, Sample ID and Group ID in that order. Any additional fields will be ignored. NULL by default
mcmc_sample	Sample out from dpeaqms.mcmc
numberOfMCMCSamples	The number of samples to taken of the MCMC chain.
controlGroup	The label of the group to be used as the control. By default the first group label is used as the control
referenceSampleID	A list of labels of the samples to be used as the calibration channel (one for each experiment). If none is specified the first sample label in each experiment is used.
summaryOnly	If TRUE outputs all the sampled parameters
outputprefix	Prefix of the outputfile

dpeaqms documentation built on May 2, 2019, 4:46 p.m.