Description

Cellsnp-lite is a C/C++ tool for efficient genotyping bi-allelic SNPs on single cells. You can use the mode A of cellsnp-lite after read alignment to obtain the snp x cell pileup UMI or read count matrices for each alleles of given or detected SNPs for droplet based single cell data.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

4 ()

Output

Name
Description
Pattern

base ()

cell ()

sample ()

allele_depth ()

depth_coverage ()

depth_other ()

versions ()

Tools

cellsnp Documentation

Efficient genotyping bi-allelic SNPs on single cells

https://github.com/single-cell-genetics/cellsnp-litedoi: 10.1093/bioinformatics/btab358License: Apache-2.0
Authors