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bio-alignment-files-bam-statistics

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Generate alignment statistics using samtools flagstat, stats, depth, and coverage. Use when assessing alignment quality, calculating coverage, or generating QC reports.

When to use

• assessing alignment quality
• calculating coverage
• generating QC reports
• read counts by category
• per-chromosome counts
• comprehensive statistics
• per-position depth
• per-region coverage

Skill page

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