Quality Assessment Tool for Genome Assemblies
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
consensus
:file
Fasta file containing the assembly of interest
meta2
fasta
The genome assembly to be evaluated. Has to contain at least a non-empty string dummy value.
meta3
gff
The genome GFF file. Has to contain at least a non-empty string dummy value.
results
${prefix}
:directory
Directory containing the results of the QUAST analysis
tsv
${prefix}.tsv
TSV file
transcriptome
${prefix}_transcriptome.tsv
Report containing all the alignments of transcriptome to the assembly, only when a reference fasta is provided
misassemblies
${prefix}_misassemblies.tsv
Report containing misassemblies, only when a reference fasta is provided
unaligned
${prefix}_unaligned.tsv
Report containing unaligned contigs, only when a reference fasta is provided
versions_quast
${task.process}
:string
The name of the process
quast
The name of the tool
quast.py --version 2>&1 | grep "QUAST" | sed 's/^.*QUAST v//; s/ .*\$//'
:eval
The expression to obtain the version of the tool
versions
QUAST calculates quality metrics for genome assemblies
