indropsSampleIndexCounts: Get the inDrops sample index counts from i5 FASTQ files

In acidgenomics/r-acidsinglecell: Acid Genomics Single Cell Experiment

Get the inDrops sample index counts from i5 FASTQ files

Description

Get the inDrops sample index counts from i5 FASTQ files

Usage

indropsSampleIndexCounts(dir, r3Pattern = "_R3\\.fastq\\.gz$", n = 24L)

Arguments

dir	character(1). Directory containing inDrops FASTQ files. Must contain R3 files, which contain the i5 index barcodes.
r3Pattern	character(1). Tail pattern for matching the R3 FASTQ files. Passed to list.files() internally as pattern argument.
n	integer(1). Number of top barcodes to return.

Value

SimpleList. Names correspond to matched file names.

Note

Updated 2023-10-27.

Examples

## > indropsSampleIndexCounts(dir = file.path("indrops", "fastq"))

acidgenomics/r-acidsinglecell documentation built on March 30, 2024, 5:39 a.m.