Nextflow Registry | nf-core/nacho/normalize@0.0.0-6c4ed3a

nf-core/nacho/normalize @ 0.0.0-6c4ed3a

NACHO (NAnostring quality Control dasHbOard) is developed for NanoString nCounter data. NanoString nCounter data is a messenger-RNA/micro-RNA (mRNA/miRNA) expression assay and works with fluorescent barcodes. Each barcode is assigned a mRNA/miRNA, which can be counted after bonding with its target. As a result each count of a specific barcode represents the presence of its target mRNA/miRNA.

nacho nanostring mRNA miRNA qc

Latest version: 0.0.0-6c4ed3a

Total downloads: 7

Source: nf-core/modules

Authors: @alanmmobbs93

Maintainers: @alanmmobbs93

Summary

Get started

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

include { NACHO_NORMALIZE } from 'nf-core/nacho/normalize'

License

MIT License

Process

`Name`	`NACHO_NORMALIZE`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`rcc_files` file	List of RCC files for all samples, which are direct outputs from NanoString runs `*.RCC`

#2 tuple

`meta2` map	Groovy Map containing file information e.g. [ id:'test_samplesheet' ]
`sample_sheet` file	Comma-separated file with 3 columns: RCC_FILE, RCC_FILE_NAME, and SAMPLE_ID `*.csv`

Output 3 channels

#1 versions

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

#2 normalized_counts tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`normalized_counts.tsv` file	Tab-separated file with gene normalized counts for the samples `normalized_counts.tsv`

#3 normalized_counts_wo_HK tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`normalized_counts_wo_HKnorm.tsv` file	Tab-separated file with gene normalized counts for the samples, without housekeeping genes. `normalized_counts_wo_HKnorm.tsv`

Tool	Description	Homepage
NACHO	R package that uses two main functions to summarize and visualize NanoString RCC files, namely: `load_rcc()` and `visualise()`. It also includes a function `normalise()`, which (re)calculates sample specific size factors and normalises the data. For more information `vignette("NACHO")` and `vignette("NACHO-analysis")`	https://github.com/mcanouil/NACHO

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:32:44 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fnacho%2Fnormalize/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/nacho/normalize/blobs/sha256:afb7d7a99333e7522142e8ea50e16e91e65d051828f832c1601e097f5b90233e
Size	4.5 KB
Checksum	sha256:afb7d7a99333e7522142e8ea50e16e91e65d051828f832c1601e097f5b90233e
Downloads	4

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:32:44 (UTC)		4	4.5 KB
0.0.0-0c7146d	08 Apr 2026 19:20:43 (UTC)		3	4.5 KB