Assembles bacterial genomes
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
shortreads
:file
List of input Illumina FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
longreads
List of input FastQ files of size 1, PacBio or Nanopore long reads.
scaffolds
*.scaffolds.fa.gz
Fasta file containing scaffolds
*.{scaffolds.fa.gz}
gfa
*.assembly.gfa.gz
gfa file containing assembly
*.{assembly.gfa.gz}
log
*.log
unicycler log file
*.{log}
versions_unicycler
${task.process}
:string
The name of the process
unicycler
The name of the tool
TERM=xterm unicycler --version 2>&1 | sed "s/^.*Unicycler v//; s/ .*$//"
:eval
The expression to obtain the version of the tool
versions
Hybrid assembly pipeline for bacterial genomes
