View source: R/onlyDeconAlgorithms.R
estCellCounts.nPass | R Documentation |
curExpr <- estCellCounts.nPass(sigMatrix, deconMatrices)
estCellCounts.nPass(geneExpr, deconMatrices, method = "DCQ")
geneExpr |
The gene expression matrix |
deconMatrices |
The results from spillToConvergence() |
method |
One of 'DCQ', 'SVMDECON', 'DeconRNASeq', 'proportionsInAdmixture', 'nnls' (DEFAULT: DCQ) |
An estimate of cell counts
#This toy example library(ADAPTS) fullLM22 <- ADAPTS::LM22[1:30, 1:4] smallLM22 <- fullLM22[1:25,] deconMatrices <- spillToConvergence(sigMatrix=smallLM22, geneExpr=fullLM22, nPasses=10) cellCounts <- estCellCounts.nPass(geneExpr=fullLM22, deconMatrices=deconMatrices, method='DCQ')
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