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_CNVnator_ a tool for Copy Number Variation (CNV) discovery and genotyping from depth-of-coverage by mapped reads.

Compilation ==

You must install [ROOT](http://root.cern.ch) package and [set up](http://root.cern.ch/root/EnvVars.html) $ROOTSYS variable (see [ROOT documentation](http://root.cern.ch/drupal/content/documentation) for details).

$ cd src/samtools $ make

Even if compilation is not completed but file libbam.a has been created you can continue.

$ cd ../ `$ make `

If make doesn't work, try "make OMP=no" which will disable parallel support.

Abyzov A, Urban AE, Snyder M, Gerstein M. CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. [Genome Res. 2011 Jun;21(6):974-84.](http://www.ncbi.nlm.nih.gov/pubmed/21324876)