A tool set for short variant discovery in genetic sequence data.
Visit http://genome.sph.umich.edu/wiki/vt for instructions.
vt uses htslib1, tclap2, Rmath3, pcre24 and libsvm5.
How to cite
vt normalize :
Adrian Tan, Gonçalo R. Abecasis and Hyun Min Kang. Unified Representation of Genetic Variants. Bioinformatics (2015) 31(13): 2202-2204
Reference
- https://github.com/samtools/htslib
- http://tclap.sourceforge.net
- https://github.com/atks/Rmath
- http://sourceforge.net/projects/pcre
- Chih-Chung Chang and Chih-Jen Lin, LIBSVM : a library for support vector machines. ACM Transactions on Intelligent Systems and Technology, 2:27:1--27:27, 2011. https://github.com/cjlin1/libsvm