Classify FASTQ files against ganon database
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fastqs{:bash}
:file
Single or paired FASTQ files, optionally gzipped
*.{fq,fq.gz,fastq,fastq.gz}
db{:bash}
Ganon database files from build or build-custom
*.{ibf,tax}
tre{:bash}
*.tre{:bash}
Full ganon report file
*.tre
report{:bash}
*.rep{:bash}
Plain ganon report file with only targets with match
*.rep
one{:bash}
*.one{:bash}
Information about a single (best) match of a given read after EM or LCA algorithms
*.one
all{:bash}
*.all{:bash}
Information of all matches to a given read
*.all
unc{:bash}
*.unc{:bash}
List of all reads without a hit
*.unc
log{:bash}
*.log{:bash}
Text file containing console output from ganon classify
*.log
versions_ganon{:bash}
${task.process}{:bash}
:string
The name of the process
ganon{:bash}
The name of the tool
ganon --version 2>1 | sed 's/.*ganon //g'{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
ganon classifies short DNA sequences against large sets of genomic reference sequences efficiently
