De novo assembler for single molecule sequencing reads
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
reads{:bash}
:file
Input reads from Oxford Nanopore or PacBio data in FASTA/FASTQ format.
*.{fasta,fastq,fasta.gz,fastq.gz,fa,fq,fa.gz,fq.gz}
mode{:bash}
:string
Flye mode depending on the input data (source and error rate)
--pacbio-raw|--pacbio-corr|--pacbio-hifi|--nano-raw|--nano-corr|--nano-hq
fasta{:bash}
*.fasta.gz{:bash}
Assembled FASTA file
*.fasta.gz
gfa{:bash}
*.gfa.gz{:bash}
Repeat graph in gfa format
*.gfa.gz
gv{:bash}
*.gv.gz{:bash}
Repeat graph in gv format
*.gv.gz
txt{:bash}
*.txt{:bash}
Extra information and statistics about resulting contigs
*.txt
log{:bash}
*.log{:bash}
Flye log file
*.log
json{:bash}
*.json{:bash}
Flye parameters
*.json
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Fast and accurate de novo assembler for single molecule sequencing reads
