Welcome to the March 2012 edition of Galaxy Update, a monthly summary of what is going on in the Galaxy community. Galaxy Updates complement the Galaxy Development News Briefs which accompany new Galaxy releases and focus on Galaxy code updates.
- The Galaxy Project is hiring post-docs and software engineers at Emory and Penn State.
- Bioinformatics Analyst @ U Virgina Bioinformatics Core
- Bioinformatician / Sr. Database Developer @ GigaScience / BGI Hong Kong
Upcoming Events and Deadlines
There are March application deadlines for a Next-gen Sequencing in Evolutionary Biology course at NESCent; Bio-Linux, and Advanced RNA-Seq and ChIP-Seq Data Analysis courses at Hinxton; Next Generation Sequencing Data Analysis at EMBL Heidelberg; Bioinformatics and Comparative Genome Analyses in Naples; Statistical Analysis of Genomic Data at CSHL; abstract deadlines for BITS 2012 and Information Visualization in BioMedical Informatics (IVBI 2012); and early registration deadlines for the April GMOD Meeting and Copenhagenomics.
See the Galaxy Events Google Calendar for details on these and other events.
- The 2012 Galaxy Community Conference (GCC2012) will be held July 25-27, in Chicago.
- The conference will feature two full days of presentations and discussions.
- Abstract submission opened February 13, and will [close April 16](/events/gcc2012/Key Dates/).
A whole day of training has been added, and topics set:
- Early registration will open any day now and close June 11.
Tool Shed Contributions
At least 8 new repositories were added to the Galaxy Tool Shed in February, including
- CREST (Clipping REveals STructure): maps somatic structural variation in cancer genomes
- MACS 1.4 ChIP-Seq peak calling (Main has 1.3)
- java_genomics_toolkit: NGS, especially WIG transformations (add/log/Z-score/etc) and visualization (KMeans/heatmaps)
- mrFAST and mrsFAST: map Illumina short reads to reference assemblies; fast and memory-efficient
- mrCaNaVaR: Read depth analysis method to characterize segmental duplications & predict absolute copy numbers
- SCALCE: Compression of FASTQ files
New non-wiki documentation
- Tutorial: Using the UCSC Genome Browser and Galaxy to study regulatory sequence evolution in Drosophila, by Casey Berman
- Notes on installing Galaxy by Paul-Michael Agapow
Galaxy-Announce now the default for new users on Main
Newly registered users on Main, the Galaxy project's public server, who check "Subscribe to a mailing list" at registration time, are now subscribed to the moderated and low-volume Galaxy-Announce mailing list, instead of the high-volume, and sometimes overwhelming Galaxy-User list. This change was also made in the Galaxy source.