Nextflow Registry | nf-core/htodemux@0.0.0-6c4ed3a

nf-core/htodemux @ 0.0.0-6c4ed3a

Demultiplex samples based on data from cell hashing.

demultiplexing hashing-based deconvolution single-cell

Latest version: 0.0.0-6c4ed3a

Total downloads: 7

Source: nf-core/modules

Authors: @LuisHeinzlmeier

Maintainers: @LuisHeinzlmeier

Demultiplex samples based on data from cell hashing.

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

include { HTODEMUX } from 'nf-core/htodemux'

MIT License

Process

`Name`	`HTODEMUX`

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 5 channels

#1 rds tuple

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

#2 params tuple

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

#3 versions

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

#4 assignment tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_assignment_htodemux.csv` file	Assignment results. `assignment_htodemux.csv`

#5 classification tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_classification_htodemux.csv` file	Classification results. `classification_htodemux.csv`

Tool	Description	Homepage
htodemux	HTODemux is the demultiplexing module of Seurat, which demultiplex samples based on data from cell hashing.	https://satijalab.org/seurat/articles/hashing_vignette

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:24:41 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fhtodemux/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/htodemux/blobs/sha256:ec8ee01e895698cd4c10a0e7ae5202e690fadc494db0804f461947b710e491a4
Size	4.6 KB
Checksum	sha256:ec8ee01e895698cd4c10a0e7ae5202e690fadc494db0804f461947b710e491a4
Downloads	4

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:24:41 (UTC)		4	4.6 KB
0.0.0-0c7146d	08 Apr 2026 19:10:09 (UTC)		3	4.6 KB