New Amazon Machine Image available from the Bioinformatics Core

The Genome Center's Bioinformatics Core Facility has announced details of a brand new Amazon Machine Image (AMI) that can be launched in the Amazon Cloud using either the Galaxy platform or from the Unix/Linux command-line. Below are a list of some of the new features of this AMI; please visit the Bioinformatics Core software page to find out more:

• Updated Galaxy to the latest build and updated the database server to a much more stable version.
• Updated bioinformatics tools to latest versions.
• Added the following locally cached indexed genomes:
  • hg19 (human)
  • mm10 (mouse)
  • rn4 (rat)
  • sacCer3 (yeast)
  • ce10 (C. elegans)
  • dm3 (D. melanogaster)
  • at10 (A. thaliana)
  • dr7 (zebrafish).
• Added Galaxy DataManagers to allow you to create your own built-in / locally cached indexed genomes. Instructions on how to do so can be found on our software page.
• When logged into your Galaxy, in the upper right corner, the usage now indicates the amount used on disk (for your data volume) over the total amount available. This will allow you to easily tell when you need to increase your volume size.
• Added an SRA toolkit extractor that will extract FASTQ/FASTA files from an SRA archive.
• Added converters, such as BAM to BigWig, FASTQ to Tabular, FASTQ groomer, etc.
• Added bedtools, picard tools, and samtools.
• Added miRNA tools.