Two articles published at MIPRO 2015
capturing work on multi-cloud support for Galaxy on the Cloud and on expanding the adoption of Big Data in bioinformatics.
Posted by Enis Afgan on May 25th 2015
Genome-wide comparative analysis reveals human-mouse regulatory landscape and evolution
Our comprehensive analysis of exaptation of regulatory elements is now published in BMC Genomics.
Posted by James Taylor on February 17th 2015
Being a part of the open source community
means participating and contributing to Sprints, Hackathons and Codefests - a process now captured in a paper.
Posted by Enis Afgan on November 27th 2014
Mouse ENCODE Consortium Papers out
comprehensive mapping and comparison of functional genomic data in human and mouse.
Posted by James Taylor on November 19th 2014
Two articles at Supercomputing 2014
were published (1) describing a Galaxy federation model and (2) providing an overview of the current Big Data analysis tools.
Posted by Enis Afgan on November 13th 2014
Welcome Enis Afgan to the lab
Enis Afgan, cloud and distributed computing expert, had joined the lab as an Associate Research Scientist as of July 2014.
Posted by James Taylor on July 1st 2014
Managing and disseminating tools and data in Galaxy
Two new papers describe the Galaxy ToolShed and Data Managers.
Posted by James Taylor on March 12th 2014
Moving from Emory to Johns Hopkins University
As of January 1st 2014 James and the lab will move to the Department of Biology and Johns Hopkins University in Baltimore, MD.
Posted by James Taylor on October 31st 2013
High resolution mapping of 3D chromatin structure
Cell paper on fine scale 3D organization is mouse ES/NPC cells, features our methods for deriving sensitive high-resolution maps of 3D chromatin structure from 5C datasets.
Posted by James Taylor on May 25th 2013
Two articles on analysis of parasitoid wasp venomes
featuring an approach for combining RNA-seq and mass spectrometry to identify peptides in dissected venom gland lumen.
Posted by James Taylor on May 23rd 2013
Galaxy For Interactive Visual Analysis
Trackster and Sweepster enable visual parameter tuning for RNA-seq analyses and other genomic analyses.
Posted by Jeremy Goecks on November 20th 2012
Encode phase two papers now out
Posted by James Taylor on September 5th 2012
Galaxy Conference and reproducibility review
Posted by James Taylor on September 1st 2012
New publications and upcoming events
Posted by James Taylor on June 22nd 2012
Galaxy Cloudman in Nature Biotechnology
Posted by James Taylor on November 30th 2011
A Complete Galaxy
To take the simplicity Galaxy is known for to the next level, we created Galaxy CloudMan - a comprehensive manager for configuring, managing, and controlling cloud resources that allow anyone to, for a modest cost and in a matter of minutes, gain access to a compute cluster with Galaxy installed and configured...
Posted by Enis Afgan on June 20th 2011
Galaxy Community Conference
Posted by James Taylor on June 2nd 2011
What Galaxy can do for You
The Galaxy team's most recent paper has been published in Genome Biology. This paper describes how Galaxy enables researchers to perform, share, and publish their analyses, all without leaving their web browser. The paper highlights many of Galaxy’s new features--workflows by example, annotations and tagging, sharing via web links, and Pages. Galaxy Pages are ideal for online supplements of published papers: they are webpages with text, images, and embedded Galaxy objects that describe complete experiments. Michael Schatz has written a Research Highlight about this paper.
Posted by Jeremy Goecks on August 26th 2010
Posted by James Taylor on May 7th 2010
Posted by James Taylor on November 3rd 2009
Windshield splatter analysis
Posted by James Taylor on October 19th 2009
In the news and blogs
Posted by James Taylor on August 17th 2009
Galaxy: Big in Japan?
I was privileged to have been invited to Biohackathon 2009 in Tokyo and Okinawa. Greg von Kuster and myself from the Galaxy team attended. It was a very interesting event, part hackathon and part unconference, with a lot of satellite discussions and informal talks. While I didn't end up doing as much hacking as I hoped, the opportunity to discuss some big challenge areas from a technical perspective was useful. The venue was incredible, and DBCLS/OIST were incredibly generous in hosting us for so long in such amazing accommodations...
Posted by James Taylor on April 3rd 2009
Profile in Genome Technology
Posted by James Taylor on December 31st 2008
The state of python and bioinformatics
Chris Lasher and Titus Brown recently posted on bioinformatics in python, briefly igniting the same old discussion on the biology-in-python list. The usual questions and concerns: "why is Perl 'winning' in bioinformatics", "why don't people like / use / contribute to BioPython", "let's make a new BioPython, I'm sure it will work better this time!"...
Posted by James Taylor on September 27th 2008
Genome Informatics 2008
The joint CSHL / Wellcome Trust meeting on Genome Informatics is one of my favorite meetings, particularly because the presentations generally contain an excellent mix of cool biology and informatics. This year's meeting was no exception, and my session (Data Management, Mining & Curation), though likely among of the least biological in overall content, turned out very well. All of the talks were excellent, and I was happy to see an (unexpected) theme among many of them: putting more power in the hands of biologists without informatics support...
Posted by James Taylor on September 15th 2008