transformCounts,DsATAC-method | R Documentation |
transform count data for an ATAC seq dataset
## S4 method for signature 'DsATAC'
transformCounts(
.object,
method = "quantile",
regionTypes = getRegionTypes(.object),
...
)
.object |
|
method |
transformation method to be applied. Currently only 'log2', 'log10', 'quantile' (quantile normalization), 'percentile' (percentile normalization),'rankPerc' (rank percentile), 'vst' (DESeq2 Variance Stabilizing Transformation), 'batchCorrect' (limma batch effect removal), tf-idf', 'CPM' (counts per million), and 'RPKM' (RPKM normalization) are supported |
regionTypes |
character vector specifying a name for the region type in which count data should be normalized(default: all region types) |
... |
other arguments depending on the |
a new DsATAC
object with normalized count data
Fabian Mueller
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