Assemble bacterial isolate genomes from Nanopore reads
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
shortreads{:bash}
:file
Optional. List of FastQ files of short reads (paired-end data) that will be used to polish the draft genome.
*.fastq.gz
longreads{:bash}
Input Nanopore FASTQ file
contigs{:bash}
*.fa{:bash}
The final assembly produced by Dragonflye
*.fa
log{:bash}
dragonflye.log{:bash}
Full log file for bug reporting
dragonflye.log
raw_contigs{:bash}
{flye,miniasm,raven}.fasta{:bash}
Raw assembly produced by the assembler (Flye, Miniasm, or Raven)
{flye,miniasm,raven}.fasta
gfa{:bash}
{flye,miniasm,raven}-unpolished.gfa{:bash}
Assembly graph produced by Miniasm, or Raven
{flye,miniasm,raven}-unpolished.gfa
txt{:bash}
flye-info.txt{:bash}
Assembly information output by Flye
flye-info.txt
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Microbial assembly pipeline for Nanopore reads
