Hosted by the Bioinformatics Core, Genome Center

This workshop will cover the basic computational and statistical concepts needed before performing bioinformatics analysis.

MAD is a weekly meetup of data scientists and scientists with data at UC Davis, usually in the Bennett Conference room on the Veterinary Medicine campus from 3-5 pm on Wednesdays (updated Fall quarter 2019).

This workshop will include a rich collection of lectures and hands-on sessions, covering both theory and tools associated with command-line RNA-seq data analysis. Participants will explore experimental design, cost estimation, data generation, and analysis of RNA-Seq data generated on the Illumina sequencing platform. Participants will explore software and protocols, create and modify workflows, and diagnose/treat problematic data utilizing high performance computing services.

This workshop will prepare you to work independently on basic analyses, using your own computing resources or publicly available on-demand computation. Not all topics regarding microbial community analysis will be covered nor all potential software resources (Qiime or Mothur will not be covered) as there are just too many.

This workshop will cover experimental design, data generation, and analysis of single cell RNA sequencing data (primarily generated using the 10x platform) on the command line and within the R statistical programming language. Participants will explore software and protocols, create and modify workflows, and diagnose/treat problematic data utilizing high performance computing services.

This intensive two week summer course introduces attendees with a strong biology background to the practice of analyzing big shotgun sequencing data sets (Illumina, PacBio, and Nanopore). We introduce students to computational thinking and large-scale data analysis on UNIX platforms, and cover genome and transcriptome analysis. We also cover computational topics including R scripting, software installation with bioconda, cloud computing, and building efficient and automated workflows.