INTERSECT

iKISS uses bedtools intersect to calculate how many kmers/contigs are mapped in FEATURES (gene by default).

These FEATURES are filtered from the annotation GFF file before use bedtools intersect.

iKISS filtered kmers/contigs by using FILTER_MAPQ_STATS and minimal kmers/contigs number FILTER_MIN_STATS by FEATURE.

PARAMS:
   INTERSECT:
         GFF : 'reference.gff'
         FEATURE : 'gene'
         FILTER_MAPQ_STATS: '15'