Nextflow Registry | nf-core/multiseqdemux@0.0.0-0c7146d

nf-core/multiseqdemux @ 0.0.0-0c7146d

Identify singlets, doublets and negative cells from multiplexing experiments. Annotate singlets by tags.

demultiplexing hashing-based deconvolution single-cell

Latest version: 0.0.0-6c4ed3a

Total downloads: 5

Source: nf-core/modules

Authors: @LuisHeinzlmeier

Maintainers: @LuisHeinzlmeier

Identify singlets, doublets and negative cells from multiplexing experiments. Annotate singlets by tags.

Add the following snippet to your workflow script to include this module.

include { MULTISEQDEMUX } from 'nf-core/multiseqdemux'

MIT License

Process

`Name`	`MULTISEQDEMUX`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`seurat_object` file	A `.rds` file containing the seurat object. Assumes that the hash tag oligo (HTO) data has been added and normalized.
`assay` string	Name of the Hashtag assay, usually called "HTO" by default. Use the custom name if the assay has been named differently.

Output 4 channels

#1 rds tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_multiseqdemux.rds` file	SeuratObject saved as RDS. `_multiseqdemux.rds`

#2 params tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_params_multiseqdemux.csv` file	The used parameters to call MULTIseqDemux in the R-Script. `_params_multiseqdemux.csv`

#3 results tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_res_multiseqdemux.csv` file	Resuls of MULTIseqDemux. `_res_multiseqdemux.csv`

#4 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
multiseqdemux	MULTIseqDemux is the demultiplexing module of Seurat, which demultiplex samples based on data from cell hashing.	https://satijalab.org/seurat/reference/multiseqdemux

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 19:20:25 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fmultiseqdemux/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/multiseqdemux/blobs/sha256:16dbf75351a90860858979fedc161d393d52e72f6b3f97585bb96fcd0975189f
Size	4.7 KB
Checksum	sha256:16dbf75351a90860858979fedc161d393d52e72f6b3f97585bb96fcd0975189f
Downloads	2

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:32:32 (UTC)		3	4.7 KB
0.0.0-0c7146d	08 Apr 2026 19:20:25 (UTC)		2	4.7 KB