runMachine: Run the deterministic statistical machine

In jtleek/rdsmGeneSig: A deterministic statistical machine for creating reproducible gene signatures

Description

This function runs the deterministic statistical machine on a set of discovery and validation data sets and optionally on a clinical data set for prediction validation.

Usage

  runMachine(discCEL, discMETA, validCEL = NULL,
    validMETA = NULL,
    reportTitle = "Gene Signature Development",
    dirName = "geneSigOutput", openReport = TRUE,
    analysisSeed = 32313)

Arguments

discCEL	A character vector where entries are directories with the CEL files for development prognostic data sets
discMETA	A character vector with entries being csv files for meta data for development prognostic data sets
validCEL	(optional) AA character vector where entries are directories with the CEL files for validation data sets
validMETA	(optional) A character vector with entries being csv files for validation data sets
predCEL	(optional) AA character vector where entries are directories with the CEL files for predictive data sets
predMETA	(optional) A character vector with entries being csv files for predictive data sets
dirName	The base name of the directory to be created
openReport	If TRUE, the HTML report is opened in the browser.
seed	Set the seed for the analysis.

Value

The directory with all of the output of the DSM.

jtleek/rdsmGeneSig documentation built on May 20, 2019, 3:13 a.m.