Identify plasmids in bacterial sequences and assemblies
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}
json
*.json
The results from analysis in JSON format
txt
*.txt
The summary of results from analysis
tsv
*.tsv
The results from analysis in TSV format
genome_seq
*-hit_in_genome_seq.fsa
FASTA of sequences in the input with a hit
plasmid_seq
*-plasmid_seqs.fsa
FASTA of plasmid sequences with a hit against the input
versions_plasmidfinder
${task.process}
:string
The name of the process
plasmidfinder
The name of the tool
2.1.6
The expression to obtain the version of the tool
versions
PlasmidFinder allows identification of plasmids in total or partial sequenced isolates of bacteria.
