The Bioinformatics Core at UC Davis is Taking Training Online!

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In response to local, state, and university guidelines, we will be offering four remote workshops over the next few weeks, including our popular RNA-Seq analysis workshop. Like our in-person workshops, our remote workshops will offer a rich mixture of lecture-based instruction and interactive course materials that allow participants to gain direct experience with individualized instructor support. 

To learn more, and to register, visit https://registration.genomecenter.ucdavis.edu


Introduction to Single Cell RNA-Seq Analysis

May 20 - 22, 2020

This distance learning 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. Exercises will be performed on the command line and within R with a provided dataset. The primary packages used for analysis will be 10x software (for sequence reads to counts) and the R packages (ex. Seurat) for downstream analysis.

There are no prerequisites other than basic familiarity with genomic concepts. Anyone with an interest in scRNA sequence analysis is welcome! Some familiarity with the command-line and R is helpful. However, we will dedicate some small amount of time to bringing everyone up-to-speed to be able to run the commands needed during this workshop.

Important Note:  The single cell RNA-Seq workflows are specific to single cell experiments.  If you will be conducting traditional RNA-Seq experiments using RNA isolated from tissues, blood, etc. you should attend our RNA-Seq workshop, which will be offered in June.

 

Advanced Single Cell RNA-Seq Analysis

May 26 - 28, 2020

This workshop will cover advanced topics in experimental design, data generation, and analysis of single cell RNA sequencing data 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. Exercises will be performed on the command line and within R with a provided dataset.

Participants should be familiar with the material covered in Introduction to Single Cell RNA-Seq Analysis, including the use of the command line and R. Prior experience with the command line and R is a must to fully participate.

Remote RNA-Seq Workshop

June 1 - June 4, 2020


This remote workshop will include a rich collection of lectures and hands-on sessions with individualized instructor support, 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. Exercises will be performed with provided datasets, using command-line interaction.

Genome Assembly Workshop

June 29 - July 2, 2020


Genome Assembly is currently in a renaissance, with new technologies coming together to complement each other, producing high-quality reference grade assemblies. This remote workshop will focus on project design, library and sequencing technologies, genome assembly and data type integration process, and evaluation in a practical and informative setting. The hands-on portion of the workshop will  involve command-line interaction with some R, therefore prior command-line and R experience is a must to fully participate.

 

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