Coverage analysis for clinical sequencing

Current release: Optimistic Otter (4.0)

The goals of Chanjo are quite simple:

  1. Integrate seamlessly with sambamba depth region output
  2. Break down coverage to intuitive levels of abstraction: exons, transcripts, and genes
  3. Enable exploratory coverage investigations across samples and genomic regions
$ sambamba depth region -L exons.bed -t 10 -t 20 alignment.bam > exons.coverage.bed
$ chanjo load exons.coverage.bed
$ chanjo calculate gene ADK
{"completeness_10": 100, "completeness_20": 87.123, "mean_coverage": 47.24234}

To learn more about Chanjo and how you can use it to gain a better understanding of sequencing coverage you can do no better than to:

Check out the demo!