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Merge gene expression data from multiple studies.

Source: R/metapredict_merge.R
mergeStudyData.Rd

Merge gene expression data from multiple studies, keeping only genes measured in each dataset, then optionally perform cross-study normalization using sva::ComBat().

Usage

mergeStudyData(
  ematList,
  sampleMetadata,
  batchColname = "study",
  covariateName = NA,
  batchCorrection = TRUE,
  parPrior = TRUE
)

Arguments

ematList

list of expression matrices.

sampleMetadata

data.frame for sample metadata.

batchColname

column in sampleMetadata containing batch information for ComBat.

covariateName

column in sampleMetadata containing additional covariates for ComBat besides batch.

batchCorrection

TRUE indicates cross-study normalization will be performed, FALSE indicates datasets will be merged without performing normalization.

parPrior

passed to ComBat's par.prior argument.

Value

A matrix of expression for genes by samples.