Difference between revisions of "Fastq mcf"
From BioUML platform
| Line 2: | Line 2: | ||
fastq-mcf attempts to: | fastq-mcf attempts to: | ||
| − | + | * Detect & remove sequencing adapters and primers | |
| − | + | * Detect limited skewing at the ends of reads and clip | |
| − | + | * Detect poor quality at the ends of reads and clip | |
| − | + | * Detect Ns, and remove from ends | |
| − | + | * Remove reads with CASAVA 'Y' flag (purity filtering) | |
| − | + | * Discard sequences that are too short after all of the above | |
| − | + | * Keep multiple mate-reads in sync while doing all of the above | |
Revision as of 17:19, 25 March 2019
Introduction
fastq-mcf attempts to:
- Detect & remove sequencing adapters and primers
- Detect limited skewing at the ends of reads and clip
- Detect poor quality at the ends of reads and clip
- Detect Ns, and remove from ends
- Remove reads with CASAVA 'Y' flag (purity filtering)
- Discard sequences that are too short after all of the above
- Keep multiple mate-reads in sync while doing all of the above
