arq5x/gemini — pull request #26 by chapmanb (2012-06-13 17:37:12+00:00)
Title: snpEff GATK support, idempotent install-data, documentation updates

Aaron;
Here are some small fixes and updates from an initial go at using gemini on a large data set:

- Allows snpEff annotations processed through GATK's VariantAnnotator: http://www.broadinstitute.org/gsa/wiki/index.php/Adding_Genomic_Annotations_Using_SnpEff_and_VariantAnnotator

- Cleans up install-data to allow it to be run multiple times without re-download and to handle linking files across filesystems.

- Handles records without snpEff annotations.

- Update documentation for stats usage in README.