download_example_data: Download PBMC example data from 10x Genomics.

In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language

Download PBMC example data from 10x Genomics.

Description

Those data are files for raw feature barcode matrices.

• download_pbmc1k(): PBMC 1k dataset (v3 chemistry, Cell Ranger 3.0.0)

• download_pbmc3k(): PBMC 3k dataset (v2 chemistry, Cell Ranger 1.1.0)

All credits go to 10x Genomics. Visit https://www.10xgenomics.com/resources/datasets for more information.

Usage

download_pbmc1k(out_dir, ask = TRUE, verbose = getOption("scdrake_verbose"))

download_pbmc3k(out_dir, ask = TRUE, verbose = getOption("scdrake_verbose"))

Arguments

out_dir	A character scalar: path to directory to which will be data downloaded and extracted. Will be automatically created if it does not exist.
ask	A logical scalar: if TRUE, ask before download.
verbose	A logical scalar: if TRUE, be verbose. The default value is obtained from getOption("scdrake_verbose").

Value

A vector of downloaded files (invisibly).

bioinfocz/scdrake documentation built on Sept. 19, 2024, 4:43 p.m.