run_kb_scseq: Run kallisto/bustools for quantifying 10X scRNA-seq data

In hms-dbmi/drugseqr: GUI to Explore Single-Cell and Bulk RNA-Seq from Fastq to Pathways and Perturbations

Run kallisto/bustools for quantifying 10X scRNA-seq data

Description

Run kallisto/bustools for quantifying 10X scRNA-seq data

Usage

run_kb_scseq(indices_dir, data_dir, species = "human", threads = 4)

Arguments

indices_dir	Directory with kallisto indices built with build_kallisto_index.
data_dir	Path to folder with 10X fastq.gz scRNA-seq files
species	Species to use index from. Currently supports 'human' or 'mouse'.
threads	Number of threads to use. Default is 1.

Value

called for side effects.

See Also

download_kb_index

hms-dbmi/drugseqr documentation built on Feb. 15, 2024, 10:38 p.m.