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

nf-core/bff @ 0.0.0-0c7146d

Generating cell hashing calls from a matrix of count data.

demultiplexing hashing-based deconvolution single-cell

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @LuisHeinzlmeier

Maintainers: @LuisHeinzlmeier

Generating cell hashing calls from a matrix of count data.

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

include { BFF } from 'nf-core/bff'

MIT License

Process

`Name`	`BFF`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`hto_matrix` file	Directory that contains the HTO matrix in a 10X format.
`methods` string	Decides whether 'RAW', 'CLUSTER' OR 'COMBINED' should be selected as the call method.
`preprocessing` string	Decides whether the HTO matrix should undergo a preprocessing step ('TRUE') or not ('FALSE').

Output 4 channels

#1 params tuple

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

#2 metrics tuple

`meta` file	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_metrics_bff.csv` file	Summary metrics will be written to this file. `_metrics_bff.csv`

#3 assignment tuple

`meta` file	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_assignment_bff.csv` file	Contains the assignment results of demultiplexing. `assignment_bff.csv`

#4 versions_bff

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

Tool	Description	Homepage
bff	A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Butler A and Satija R (2017) <doi:10.1101/164889> for more details.	https://rdrr.io/github/BimberLab/cellhashR/man/GenerateCellHashingCalls.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:26:43 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbff/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bff/blobs/sha256:bb6a278d35e4bcf67f4d6e1fc980c1c1b3d784036de4c2c74c967d3e6b096a3e
Size	6.4 KB
Checksum	sha256:bb6a278d35e4bcf67f4d6e1fc980c1c1b3d784036de4c2c74c967d3e6b096a3e
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:26:43 (UTC)		1	6.4 KB	-