Read Filtering
Input reads are filtered by removing any of the following reads:
| • | Reads that failed base calling quality checks. |
| • | Reads marked as PCR duplicates. |
| • | Paired-end reads not marked as a proper pair. |
| • | Reads with a mapping quality < 20. |
Input reads are filtered by removing any of the following reads:
| • | Reads that failed base calling quality checks. |
| • | Reads marked as PCR duplicates. |
| • | Paired-end reads not marked as a proper pair. |
| • | Reads with a mapping quality < 20. |