This is a question that is often asked when I demo the GenomeQuest platform to potential customers. I always answer that question in three phases. The first phase goes like this: "It's really fast, it's certainly not any slower than BWA/Bowtie or anything else out there.". Next question is always: "Well, do you have any benchmarks?". Which ...
As the product manager at GenomeQuest, I'm very excited to tell you about a couple of really great new features in the GQ-Engine. Features that add to the growing library of high quality NGS components available to GQ platform developers and end users. Fast local alignments of NGS reads NGS read mappers typically align reads by trying to ...
We've released our ChIP-Seq workflow this week, available to anyone with a Free Basic Account inside of GenomeQuest. Like all of our NGS workflows, it runs in two basic steps: a mapping step and a downstream analysis step. In this case, of course, the downstream analysis is a peak-finding algorithm. We chose the MACS modeling ...
At the CHI NGS conference, I chaired a roundtable of key managers and influencers discussing the opportunity and challenges to adoption of "cloud computing" for NGS applications. As a first observation, the session was well attended and people are thinking deeply about cloud issues. About 16 participated including representatives from major pharmaceuticals, agroscience, major ...
We've heard lots of requests from customers not only to provide them with powerful methods for detection variants across multiple experiments (or phenotypes, or organisms, or lines), but for unifying all of this data to find knowledge that spans these experiments. Of course we have our variant calling workflow, just as we integrate with other variant ...
The recent article "Tear Down This Firewall: Pharma Scientists Call for a Pre-competitive Approach to Bioinformatics" signals a watershed event in the evolution of commercial bioinformatics industry. Faced with the dual forces of budget pressures and need to invest or die, pharma is giving itself "permission" to consider economic alternatives to ...