Software

Scientists in the Broad community have developed many critical software tools for the analysis of increasingly large genome-related datasets, and they make these tools openly available to the scientific community. For the conditions governing the use of Broad Institute software, please see the software use agreement associated with the tools you choose to download.

Use our search function, browse the complete software collection or click on one of the software categories listed below:

  • EIGENSTRAT

    EIGENSTRAT detects and corrects for population stratification in genome-wide association studies using principal components analysis.

  • PLINK

    PLINK is a comprehensive toolset for statistical analysis in whole-genome association studies.

  • SNAP

    SNAP is a web server for finding and annotating proxy SNPs based on linkage disequilibrium, genomic location, and coverage by commercial genotyping arrays.