GoodCigarReadFilter
Keep only reads containing good CIGAR string
Category
Read Filters
Overview
Keep only reads containing good CIGAR strings.
Good CIGAR strings have the following properties:
- Valid according to the SAM specifications.
- Does not start or end with deletions (with or without preceding clips).
- Does not have consecutive deletion/insertion operators.
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GATK version 4.6.2.0 built at Sun, 13 Apr 2025 13:21:43 -0400.