knotty - a comprehensive SV discovery suite

knot·ty adj. knot·ti·er, knot·ti·est

1. Tied or snarled in knots.
2. Covered with knots or knobs; gnarled.
3. Difficult to understand or solve.
4. A comprehensive SV discovery suite

knotty is very much a work in progress. Not for public consumption...yet. Stay tuned.

Acknowledgements

knotty benefits from the following open-source libraries:

1. bamtools (https://github.com/pezmaster31/bamtools). An elegant C++ API for reading, writing, and manipulating sequence alignments in the BAM format. Author: Derek Barnett.
2. bwa (http://bio-bwa.sourceforge.net/). knotty uses the stdaln library developed by Heng Li as part of the BWA package. This library is used to generate a consensus sequence from overlapping read pairs.