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Golden Helix Says Next Release of SVS Suite Will Run on GPUs to Speed Analysis


This week, Golden Helix announced that the next version of its SNP & Variation Suite software will be able to run on off-the-shelf graphics processing units and detect copy number variants in less time and at a fraction of the cost of compute clusters and cloud-based computing.

The new GPU capabilities will be included in version 7.4 of SVS that will be released in November.

For the first version of the GPU-enabled software, the company has sped up SVS's copy number variation detection algorithm, which now runs "10 to 20 times faster on a GPU than on a similarly priced central processing unit" Gabe Rudy, vice president for product development at Golden Helix, said in a statement.

GPUs can contain hundreds of microprocessors and are inexpensive when compared to clusters and clouds, Golden Helix said, adding that "extremely fast GPUs cost less than $500" and are currently being used in other markets such as oil exploration and graphic design.

Christophe Lambert, Golden Helix's president and CEO, said that "exploiting the power of GPUs" is a way to "keep bioinformatics on the desktop or small server" so that genetic analysis research remains "feasible for … researchers who are fiscally constrained" and don’t have the "resources for massive clusters and petabytes of disk storage."

The Scan

Interfering With Invasive Mussels

The Chicago Tribune reports that researchers are studying whether RNA interference- or CRISPR-based approaches can combat invasive freshwater mussels.

Participation Analysis

A new study finds that women tend to participate less at scientific meetings but that some changes can lead to increased involvement, the Guardian reports.

Right Whales' Decline

A research study plans to use genetic analysis to gain insight into population decline among North American right whales, according to CBC.

Science Papers Tie Rare Mutations to Short Stature, Immunodeficiency; Present Single-Cell Transcriptomics Map

In Science this week: pair of mutations in one gene uncovered in brothers with short stature and immunodeficiency, and more.