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