import.bam {CAGEr} | R Documentation |
Imports CTSS data from a BAM file.
import.bam(filepath, filetype, sequencingQualityThreshold = 10, mappingQualityThreshold = 20)
filepath |
The path to the BAM file. |
filetype |
bam or bamPairedEnd. |
sequencingQualityThreshold |
See getCTSS(). |
mappingQualityThreshold |
See getCTSS(). |
Other loadFileIntoGPos: bam2CTSS
,
import.CTSS
, import.bam.ctss
,
import.bedCTSS
,
import.bedScore
,
import.bedmolecule
,
loadFileIntoGPos
,
moleculesGR2CTSS
# TODO: add exmaple file # import.bam(system.file("extdata", "example.bam", package = "CAGEr"))