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

nf-core/syri @ 0.0.0-0c7146d

Syri compares alignments between two chromosome-level assemblies and identifies synteny and structural rearrangements.

genomics synteny rearrangements chromosome

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @GallVp

Maintainers: @GallVp

Syri compares alignments between two chromosome-level assemblies and identifies synteny and structural rearrangements.

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

include { SYRI } from 'nf-core/syri'

MIT License

Process

`Name`	`SYRI`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`infile` file	File containing alignment coordinates `*.{table, sam, bam, paf}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`query_fasta` file	Query genome for the alignments `*.{fasta}`

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`reference_fasta` file	Reference genome for the alignments `*.{fasta}`

`file_type` string	Input file type which is one of T: Table, S: SAM, B: BAM, P: PAF

Output 3 channels

#1 syri tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*syri.out` file	Syri output file `*syri.{out}`

#2 error tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.error.log` file	Error log if syri fails. This error log enables the pipeline to detect if syri has failed due to one of its known limitations and pass the information to the user in a user-friendly manner such as a HTML report `*.error.{log}`

#3 versions

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

Tool	Description	Homepage
syri	Synteny and rearrangement identifier between whole-genome assemblies	https://github.com/schneebergerlab/syri

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:18:29 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fsyri/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/syri/blobs/sha256:dbc1f595e1fff314e1a287b6ea9207bd714961109b60ea3956e02299951eb83d
Size	2.9 KB
Checksum	sha256:dbc1f595e1fff314e1a287b6ea9207bd714961109b60ea3956e02299951eb83d
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:18:29 (UTC)		1	2.9 KB	-