assembles bacterial plasmids
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
scaffold
:file
Fasta file containing scaffold
fasta
FASTA reference file
*.{fasta,fa}
html
${prefix}/*final_results.html
html file with results rendered
*.{html}
tab
${prefix}/*final_results.tab
Results in a tabular file
*.{tab}
images
${prefix}/images/
:directory
Directory containing the images produced by plasmidid
logs
${prefix}/logs/
Directory containing the logs produced by plasmidid
data
${prefix}/data/
Directory containing the data produced by plasmidid
database
${prefix}/database/
Directory containing the database produced by plasmidid
fasta_files
${prefix}/fasta_files/
Directory containing the fasta files produced by plasmidid
kmer
${prefix}/kmer/
Directory containing the kmer files produced by plasmidid
versions
versions.yml
File containing software versions
Pipeline for plasmid identification and reconstruction
