Similarly to last week’s “virtual issue” created by Bioinformatics (Oxford Journals), the Nature Group also has a selection of NGS related articles. This collection is available on their webpage. The list of highlighted articles is updated twice a month, and you can also subscribe to a monthly newsletter.
Month: August 2013
Workflow Wednesdays – Short read aligners – Omixon Variant Toolkit
Omixon Variant Toolkit (aka Omixon Read Mapper or ORM)is our “own” alignment algorithm which is available as a standalone java application or in Omixon Target. The aligner actually contains two, slightly different algorithms*: one for shorter Illumina reads, called “bridge” and one for longer (IonTorrent and 454) reads, called “lace”. Both methods do gapped alignment.
Interview with Tim Hague, the new CEO of Omixon
Tim Hague, the new CEO of Omixon, answered some of our questions about the future of next generation sequencing and more.
What have you been working on at Omixon so far?
Up to now, I’ve been Omixon’s Chief Technology Officer, so I’ve been concentrating on leading the research and development teams and on building the Omixon software products, including our flagship product, Omixon Target. Two years ago we started with a blank sheet of paper and a few algorithms, and now we have a suite of NGS bioinformatics tools including ones for HLA Typing and targeted data analysis, and I’m really proud of what we’ve achieved so far. I’ve also been involved in supporting the sales people and I’ve helped out quite a bit with customer support, account management, marketing and the web site. Continue reading
Bioinformatics for Beginners – Bioconductor
Bioconductor is an open source, open development toolset for analysing high-throughput genomic data. It is based on the R programming language (see last week’s post about R). Bioconductor can be used for a wide range of subjects from analysing assays, to querying databases or finding candidate binding sites for transcription factors.
Flashcard Fridays – “Bioinformatics for Next Generation Sequencing” virtual issue
In 2009, Bioinformatics (Oxford Journals) launched a “virtual issue” about NGS. This is basically a regularly updated list of papers relevant to next generation sequencing that have been published in the journal.