Custom - Remove Overlapping ReadsΒΆ
Removes overlapping mapped reads, keeping only a single copy. This ensures that the each base is covered with at most one read. The tool is suitable for specific use cases.
Location
- Filepath: <SnakeLines_dir>/rules/shared/mapping/postprocess/deoverlapped/custom.snake
- Rule name: custom__remove_overlapping_reads
Input(s):
- bam: Mapped reads in bam format
- bai: Index to mapped reads for enable fast read retrieval from desired genomic region
Output(s):
- bam: Mapped reads without overlapping reads.