scoreCellsInChunks: Classify cells using marker genes.
In clajusch/ClEvaR: Cluster Evaluation in R

Description Usage Arguments Value

Performs cell typing on chunks of FASTGenomics expression files. Useful for large datasets and limited computing ressources.

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scoreCellsInChunks(dataset = NULL, filename = NULL,
  chunkSize = 10000, markerGenes = NULL, geneColumn = "entrez_id",
  scoreColumn = "score", classColumn = "cell_type", verbose = TRUE)

`dataset`	A FASTGenomics Matrix of expression values.
`filename`	Name of FASTGenomics HDF5 file.
`markerGenes`	An optional data frame with scores of marker genes for cell types; the immune cell markers compiled from Newman et al., Nature Methods (2015) is provided as default.
`geneColumn`	Gene column name in markerGenes data frame; defaults to `entrez_id`.
`scoreColumn`	Score column name in markerGenes data frame; defaults to `score`.
`classColumn`	Class column name in markerGenes data frame; defaults to `cell_type`.