Adaptive Signature Selection and InteGratioN (ASSIGN)


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Documentation for package ‘ASSIGN’ version 1.41.0

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assign.convergence Check the convergence of the MCMC chain
assign.cv.output Cross validation output
assign.mcmc The Gibbs sampling algorithm to approximate the joint distribution of the model parameters
assign.output Prediction/validation output for test data
assign.preprocess Input data preprocessing
assign.summary Summary of the model parameters estimated by the Gibbs sampling algorithm
assign.wrapper ASSIGN All-in-one function
ComBat.step2 Perform the second step of ComBat
excludegenes Exclude Gene List
gather_assign_results Gather the ASSIGN results in a specific directory
geneList1 Pathway signature gene sets
gfrn_geneList Pathway Signature Gene Lists
merge_drop Combine two data frames
optimizeGFRN Optimize GFRN gene lists lengths
pcaplot Display a PCA Plot of the Data
runassignGFRN Run optimized single pathway ASSIGN
testData1 Gene expression profiling from cancer patients (test dataset)
trainingData1 Gene expression profiling from cell line perturbation experiments (training dataset)