Resolve trimmed assembly graphs into final contigs within Autocycler.
meta
:map
Groovy Map containing sample information e.g. [ id:'sample1' ]
[ id:'sample1' ]
gfa
:file
Trimmed assembly graph in GFA format from the previous step.
*.gfa
bridged
resolve/${prefix}/${prefix}_3_bridged.gfa
Assembly graph with bridges resolved.
resolve/*/*_3_bridged.gfa
merged
resolve/${prefix}/${prefix}_4_merged.gfa
Merged assembly graph after bridging.
resolve/*/*_4_merged.gfa
resolved
resolve/${prefix}/${prefix}_5_final.gfa
Final resolved assembly graph.
resolve/*/*_5_final.gfa
versions_autocycler
${task.process}
:string
The name of the process
autocycler
The name of the tool
autocycler --version | sed 's/^[^ ]* //'
:eval
The expression to obtain the version of the tool
versions
A tools for generating consensus long-read assemblies for bacterial genomes.
