Microbial Community Analysis Workshop in September

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September 6-8: Microbial Community Analysis Workshop   This workshop covers amplicon-based microbial analysis and methodology using high throughput sequencing technologies, and ancillary topics, including: Differences between community analysis with amplicons versus shotgun metagenomics and metatranscriptomics Experimental design Sequencing library preparation techniques and considerations (lecture only) Sequence data quality assurance and expectations Processing of amplicon reads… Read more »

Variant Analysis Workshop in August

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August 21-25: Variant Analysis Workshop   Participants will explore experimental design, cost estimation, data generation, and processing of genomic data generated on the Illumina sequencing platform to discover and analyze variants. Topics will include mapping data to a genome, variant discovery pipelines, SNP annotation, effect prediction, structural variants, copy number variants, Genome-Wide Association Studies (GWAS),… Read more »

Finding variations in canine tumors may provide insight into common pathways for human cancer

Posted by & filed under Data Analysis, Publications.

Bioinformatics Core analyst/programmer Nikhil Joshi was co-author on a paper recently published in The Journal of Neuropathology & Experimental Neurology: Chromosomal Aberrations in Canine Gliomas Define Candidate Genes and Common Pathways in Dogs and Humans Nikhil was involved with quality assurance and alignment of data, visualization and calculating statistics about the alignments, as well as… Read more »

Announcing our newest Amazon Machine Image

Posted by & filed under Research computing.

We are pleased to announce the release of our newest Galaxy/command-line Amazon Machine Image. The new features of this AMI include updated versions of all of the bioinformatics software, updated and fixed Galaxy tool interfaces, and a Galaxy FTP server that makes it easy to transfer large files to Galaxy. Instructions on how to launch… Read more »

Newest UCD Biocore Galaxy AMI now available!

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Having just completed our week-long Bioinformatics Short Course, we are pleased to announce that we have made our custom Galaxy AMI (ID: ami-bc586cf9) available for public use in the Amazon Cloud.  This new AMI contains many of the standard tools from Galaxy as well as many custom tools and interfaces, such as Sickle, Scythe, GATK2, SGA, velvet,… Read more »