modules/merfin_hist
Compare k-mer frequency in reads and assembly to devise the metrics K* and QV*
Input
Genome assembly in FASTA; uncompressed, gz compressed [REQUIRED]
*.{fasta, fasta.gz}
Input vector of k-mer probabilities (obtained by genomescope2 with parameter —fitted_hist) [OPTIONAL]
lookup_table.txt
Input for pre-built sequence meryl db. By default, the sequence meryl db will be generated from the input genome assembly [OPTIONAL]
*.{meryl_db}
Tools
merfin Apache-2.0
Merfin (k-mer based finishing tool) is a suite of subtools to variant filtering, assembly evaluation and polishing via k-mer validation. The subtool -hist estimates the QV (quality value of [Merqury](https://github.com/marbl/merqury)) for each scaffold/contig and genome-wide averages. In addition, Merfin produces a QV* estimate, which accounts also for kmers that are seen in excess with respect to their expected multiplicity predicted from the reads.