import.bam: import.bam

Description Usage Arguments See Also Examples

View source: R/ImportMethods.R

Description

Imports CTSS data from a BAM file.

Usage

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import.bam(filepath, filetype, sequencingQualityThreshold = 10,
  mappingQualityThreshold = 20)

Arguments

filepath

The path to the BAM file.

filetype

bam or bamPairedEnd.

sequencingQualityThreshold

See getCTSS().

mappingQualityThreshold

See getCTSS().

See Also

Other loadFileIntoGPos: bam2CTSS, import.CTSS, import.bam.ctss, import.bedCTSS, import.bedScore, import.bedmolecule, loadFileIntoGPos, moleculesGR2CTSS

Examples

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# TODO: add exmaple file
# import.bam(system.file("extdata", "example.bam", package = "CAGEr"))

CAGEr documentation built on Jan. 17, 2021, 2 a.m.