News and Blog

News and Blog

Public or Private Cloud, or maybe Hybrid?

Last week I noticed that a new world record had been set... and I'm afraid I'm not talking about the common wealth games, but rather about another advance in private cloud computing. The record was set ( or rather reset, as they already held it ) by..

European Conference on Computational Biology, Ghent ( ECCB10)

October 15, 2010 / no comments / in Bioinformatics / by Nick James
October 15, 2010 no comments in Bioinformatics by Nick James

Here is the poster I presented at the European Conference on Computational Biology in Ghent a few weeks ago. It describes our ensembl-based analysis system for predicting novel miRNA from next generation sequencing data.  We will make the VM freely..

Installing PlasMapper

Yesterday I found a strange thing - a piece of open-source bioinformatics software that only needed minor tweaking before it would run. Top marks to the authors, although they might like to read the following to learn how they can make it absolutely..

Will Spooner

Public personal genomes; open-access, open-source, open-ended?

Over at Genomes Unzipped yesterday, 12 named individuals, molecular biologists in the main, released their genomes into the public domain, generating some press interest. These exponents of molecular naturism are the latest in a growing line,..

Airplanes

Working in a bioinformatics service group is like working in Air Traffic Control.

Bio-IT World Europe 2010 slides

Here are the slides I just presented at the Cloud Computing Workshop at Bio-IT World Europe 2010 in Hannover, Germany. Other speakers included Dave Powers from CycleComputing, and Glenn Proctor from the EBI, both of whom presented very interesting..

Will Spooner

Commercialisation of scientific software; the case for open-source.

September 29, 2010 / no comments / in Bioinformatics / by Will Spooner
September 29, 2010 no comments in Bioinformatics by Will Spooner
Since the Fort Lauderdale agreement in 2003, genomics has had perhaps the most 'open' attitude to data sharing of any field of science, and this is reflected in attitudes to software, where open-source is the norm.

 

 

Much like the Apache web..

Changing understandings

Reading an article on the BBC website ('Computers show how wind could have parted Red Sea') this morning reminded me how sometimes our understanding of the world can change.  Here is a case of what many people would have thought of as  being a..

Single point of failure

This should be common sense really, but the weakest point of any software system is the point that is non-redundant and cannot be avoided. No matter how many alternative paths you have that pass through that point, if none of the paths can get to..

Abel Ureta-Vidal

Amazon S3 as a File System in Amazon EC2

September 20, 2010 / 3 Comments / in AWS, Big data technology, EC2, S3 / by Abel Ureta-Vidal

As a cloud application developer, shared storage on EC2 is particularly challenging when GBs of data has to be accessed by 100s of EC2 instances. One particular option we explored is leveraging our Amazon S3 storage to mount on EC2 instances and use..

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