Author Archives: James Grover

About James Grover

James Grover was hired as Golden Helix' third employee ten years ago and is still with the company today. He is a Senior Mathematician and Computer Engineer whose job is to enhance and maintain SVS through implementing state-of-the-art algorithm as software code, both in the core product and in scripts. James has a Masters in Applied Math from California Institute of Technology. Prior to joining Golden Helix, James did software programming for a scientific contracting company and for a non-profit organization. In his free time, he enjoys singing and playing the clarinet.

By Popular Request: Our BEAGLE Algorithm Gains Support for Family Structure

family structure

Earlier this year we released our own optimized and integrated BEAGLE implementation for SVS based on the BEAGLE 4.1 and optionally 4.0 algorithms. One of the commonly requested features since that released was to expand the algorithm implementation to be considerate of the parent-offspring relationship between samples to inform and improve the accuracy of the haplotype phasing.  With this information,… Read more »

Checking Relatedness and/or Inbreeding in Samples as a Quality Assurance Measure

James' whiteboard with IBD calculations

Almost every statistic that is used for significance testing in scientific research comes with a set of assumptions. If the test is applied to data that does not meet those assumptions, then the results of the test may not be valid. The statistics commonly used in genome-wide association studies (GWAS), such as the Fisher’s Exact Test or the Chi-Square Test,… Read more »