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

nf-core/plasmidfinder @ 0.0.0-0c7146d

Identify plasmids in bacterial sequences and assemblies

fasta fastq plasmid

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

Source: nf-core/modules

Authors: @eit-maxlcummins @rpetit3

Maintainers: @rpetit3

Identify plasmids in bacterial sequences and assemblies

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

include { PLASMIDFINDER } from 'nf-core/plasmidfinder'

MIT License

Process

`Name`	`PLASMIDFINDER`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	Input FASTA or FASTQ formatted genome sequences `*.{fastq.gz,fq.gz,fastq.gz,fna.gz,fa.gz}`

Output 6 channels

#1 tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.tsv` file	The results from analysis in TSV format `*.tsv`

#2 txt tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.txt` file	The summary of results from analysis `*.txt`

#3 json tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.json` file	The results from analysis in JSON format `*.json`

#4 genome_seq tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*-hit_in_genome_seq.fsa` file	FASTA of sequences in the input with a hit `*-hit_in_genome_seq.fsa`

#5 plasmid_seq tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*-plasmid_seqs.fsa` file	FASTA of plasmid sequences with a hit against the input `*-plasmid_seqs.fsa`

#6 versions_plasmidfinder tuple

`${task.process}` string	The name of the process
`plasmidfinder` string	The name of the tool
`2.1.6` string	The expression to obtain the version of the tool

Tool	Description	Homepage
plasmidfinder	PlasmidFinder allows identification of plasmids in total or partial sequenced isolates of bacteria.	https://cge.cbs.dtu.dk/services/PlasmidFinder/

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 19:26:22 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fplasmidfinder/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/plasmidfinder/blobs/sha256:fb012dc220097efaabd1cdff32915b1c6db660fe5dc401b1a8c6f4d1014d4801
Size	3.1 KB
Checksum	sha256:fb012dc220097efaabd1cdff32915b1c6db660fe5dc401b1a8c6f4d1014d4801
Downloads	3

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:37:31 (UTC)	4	3.1 KB
0.0.0-3fc6d40	22 Apr 2026 15:25:49 (UTC)	3	3.1 KB
0.0.0-0c7146d	08 Apr 2026 19:26:22 (UTC)	3