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 ...
Illumina's HiSeq 2000 running at capacity can sequence two whole human genomes per week at 30x coverage - enough for a full-blown whole genome analysis. One instrument produces 104 human genomes per year. Beijing Genomics Institute alone has purchased 128 of these instruments. The Broad has 51. And based on Illumina's 2010 Q1 10-Q filing, they've ...
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 ...
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 guiding principle of the development of the GenomeQuest 6.0Beta platform is to support the complete "sequence cycle" – from uploading raw reads, to mapping them to an arbitrary reference, to generating knowledge through a variety of workflows, and then ultimately through to the assembly of those reads for use as the reference for tomorrow's ...
The Next Generation Sequencing Data Analysis conference in Providence in September looks like it's shaping up to be a good one. Plenty of GenomeQuesters will be there as will I. We're sponsoring a roundtable - NGS Five Years Down The Road. In five years time, NGS will have gone from "sexy new technology" to "established ...
The past few weeks have been exciting! The rush of users to the 6.0Beta product has kept us on our toes trying to ensure that everyone can find their way around. Our users' ingenuity is thrilling to watch. The heart of the company beats in rhythm with users who take a few hundred million reads in ...
I'm thrilled about our launch of GenomeQuest 6.0Beta because I believe it'll really have an impact on researchers' abilities to make sense of their NGS data. We've overlayed a web-based toolkit of NGS analyses on top of our world-class NGS-scale sequence data management engine, and have included all of the world's reference data. In just ...