Identify plasmids in bacterial sequences and assemblies
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
seqs:file
Input FASTA or FASTQ formatted genome sequences
*.{fastq.gz,fq.gz,fastq.gz,fna.gz,fa.gz}
json
*.json:file
The results from analysis in JSON format
*.json
txt
*.txt:file
The summary of results from analysis
*.txt
tsv
*.tsv:file
The results from analysis in TSV format
*.tsv
genome_seq
*-hit_in_genome_seq.fsa:file
FASTA of sequences in the input with a hit
*-hit_in_genome_seq.fsa
plasmid_seq
*-plasmid_seqs.fsa:file
FASTA of plasmid sequences with a hit against the input
*-plasmid_seqs.fsa
versions
versions.yml:file
File containing software versions
versions.yml
PlasmidFinder allows identification of plasmids in total or partial sequenced isolates of bacteria.
