Description

Demultiplexing cell nucleus hashing data, using the estimated antibody background probability.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

output_name (string)

Output name. All outputs will use it as the prefix.

generate_gender_plot (string)

Generate violin plots using gender-specific genes (e.g. Xist). It is a comma-separated list of gene names.

genome (string)

Reference genome name. If not provided, the tools infers it from the expression matrix file

generate_diagnostic_plots (string)

Generate diagnostic plots, including the background/signal between HTO counts, estimated background probabilities, HTO distributions.

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

Tools

demuxem Documentation

DemuxEM is the demultiplexing module of Pegasus, which works on cell-hashing and nucleus-hashing genomics data.

https://github.com/lilab-bcb/pegasus/tree/masterdoi: 10.1038/s41467-019-10756-2License: BSD-3-clause
Authors