mash_sketch_fastq¶
Purpose¶
This component performs mash sketch for fastq input files. These sketches can
be used by mash_dist
and mash_screen
components to fetch the
reference file for mash.
Note
- MASH documentation can be found here.
Input/Output type¶
- Input type:
fastq
- Output type:
msh
Parameters¶
kmerSize
: Parameter to set the kmer size for hashing. Default: 21. Default: false.sketchSize
: Parameter to set the number of hashes per sketch. Default: 1000.minKmer
: Minimum copies of each k-mer required to pass noise filter for reads. Default: 1.genomeSize
: Genome size (raw bases or with K/M/G/T). If specified, will be used for p-value calculation instead of an estimated size from k-mer content. Default: false, meaning that it won’t be used. If you want to use it pass a number to this parameter.
Published results¶
None.
Published reports¶
None.
Default directives¶
mashSketchFastq
:container
: flowcraft/mash-patlasversion
: 1.6.0-1