getSampleMetrics.snakeATAC

Retrieve sample summary statistics from the output a snakeATAC pipline run

getSampleMetrics.snakeATAC(sampleAnnot, snakeDir, withPeaks = TRUE)

Arguments

sampleAnnot

data.frame specifying the sample annotation table. Must have valid rownames corresponding to the sample ids used in the snakeAtac filenames

snakeDir

snakeATAC base directory (where the files are located)

withPeaks

flag indicating whether to output peak statistics

Value

data.frame containing sample summary statistics. the original sample annotation table will be appended to the summary output

Author

Fabian Mueller