TENxFragments: TENxFragments: Import fragments files from 10X

In LiNk-NY/TENxIO: Import methods for 10X Genomics files

TENxFragments: Import fragments files from 10X

Description

TENxFragments: Import fragments files from 10X

Usage

TENxFragments(resource, yieldSize = 200, which = GRanges(), ...)

Arguments

resource	character(1) The file path to the fragments resource, usually a compressed tabix file with extension .tsv.gz.
yieldSize	numeric() The number of records to read by default, 200 records will be imported. A warning will be emitted if not modified.
which	GRanges() A GRanges indicating the regions of interest. This get sent to RSamtools as the param input.
...	Further arguments to the class generator function (currently not used)

Value

A RaggedExperiment object class

Examples

fr <- system.file(
    "extdata", "pbmc_3k_atac_ex_fragments.tsv.gz",
    package = "TENxIO", mustWork = TRUE
)

tfr <- TENxFragments(fr)

fra <- import(tfr)

LiNk-NY/TENxIO documentation built on May 3, 2024, 11:08 p.m.