The DexBatch class helps users test the effect of different parameter options and/or input compendia on gene module prediction.
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A DexBatch object defines a set of jobs. Each job first predicts a set of gene modules, then evaluates their quality. Jobs within a DexBatch differ from each other in some way; the purpose of a DexBatch is to test the effect of these differences on the quality of the resulting modules.
Individual jobs in a DexBatch are executed by calling
While each job could be run sequentially on a single machine, it is usually
more practical when testing a large number of parameters to execude the jobs in
parallel (see Use Cases in the DEXICA vignette)
If params is NULL, a single parameter set will be supplied using default values for
parameterSet constructor. If output is NULL, results will
be directed to
countJobs: Count the number of jobs defined in a DexBatch object (see
runJob: Run a single job defined in a DexBatch object (see
A matrix or list of matrices containing the compendia to be tested
A matrix or list of matrices containing the annotation matrices to be used
in module evaltation (see
A ParameterSet object containing desired parameter ranges to be
Character string name of output file
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