WhopGenome - high-speed access to whole-genome variation data

WhopGenome is a package for R that provides high-speed access to Variant Call Format (VCF) files as e.g. published by the 1000 Genomes Project.

Unlike other approaches to make this kind of data available inside R, it does not require preprocessing, additional annotations, does not load the entire file into memory, is available as a CRAN-guidelines package and does as much as possible in compiled code.

References

  • McVean et al. (2012). An  integrated map of genetic variation from 1,092 human genomes. Nature 491, 56–65
  • Danecek P, 1000 Genomes Project Analysis Group et al.  (2011). The variant call format and VCFtools. Bioinformatics 27(15): 2156–2158

Download

Latest version is available on CRAN http://cran.r-project.org/web/packages/WhopGenome/ .

Download-Link will appear here soon as well.

Contact

undefinedUlrich Wittelsbürger

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