kdm9 / knives

A pipelined quality control script that utilises the UC Davis Biocore's sabre, sickle, scythe and seqqs.

knives

A pipelined quality control script that utilises the UC Davis Bioinformatics Core's sickle, scythe and seqqs.

Usage:

Knives takes paired input FASTQ files, and outputs paired good quality reads, and single reads whose pairs failed quality control. It also takes a range of mandatory and optional parameters. Run

$ knives

to see a full range of parameters. A detailed user manual is on it's way, but as this tool is simply a wrapper around sickle, scythe and seqqs, one can for the time being consult their excellent user guides, available from each tool's GitHub page.