Author Archives: Golden Helix

CNV Analysis Tips for Illumina Data

      Golden Helix    November 24, 2010    1 Comment on CNV Analysis Tips for Illumina Data

The following statement is representative of a common question that is posed to the Golden Helix support team: “I followed all of the steps in the SVS7 CNV analysis tutorial, but my results seem kinda funny. The segment means are skewed to the left and it doesn’t look like I have any copy number gains.  Can you tell me what… Read more »

Conference Report: International Genetic Epidemiology Society and Genetic Analysis Workshop

The week of October 10-16th was a busy time in our industry.  Hundreds of biostatisticians, genetic epidemiologists, and statistical geneticists gathered in Cambridge, MA for the annual conference of the International Genetic Epidemiology Society (IGES) on October 10-12, followed by the biennial Genetic Analysis Workshop (GAW) on October 13-16.  I had the opportunity to participate in both conferences, and I… Read more »

Four New Add-on Scripts Available for Strand Flipping, Histogram Means, and Chi-Squared Calculation

The scripting environment in SVS 7 allows for cross-communication between the powerful Python scripting language and the tools used in data analysis. Scripting is often the most effective way to make new features available to customers prior to new software releases. We often write scripts based on a specific customer’s need and then expand availability to all customers, many who… Read more »

Best Practices for Incorporating Public Genotype Data in Your Study

The Golden Helix sales team recently came to me for recommendations regarding best practices for incorporating public controls in SNP GWAS.  It seems that there has been a surge of questions regarding this practice over the past few weeks from our customers.  Initially, I laughed at the irony of being asked to outline the best practices for what I see… Read more »

The What, Why, and How of Creating a Genome Map

Including the completion of the Human Genome Project in 2003, scientists have created whole genome sequence maps for over 1,000 species. From maize to oysters, the quest to investigate different species’ genetic code continues. Mapping is the “first step” that provides a baseline for further study into differences between species, the occurrence of certain diseases, and the prevalence of traits… Read more »