UC Davis Bioinformatics Core August 2019 RNA-Seq Workshop @ UCD
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| Home | Introduction |
|---|
| Intro to the Workshop and Core |
| What is Bioinformatics? |
| Experimental Design and Cost Estimation | Command-Line and the Cluster |
| Logging in and Transferring Files |
| Intro to Command-Line |
| Advanced Command-Line |
| Running jobs on the Cluster and using modules | Intro to R and Rstudio |
| Getting Started |
| Intro to R |
| Prepare Data in R (extra) |
| Data in R (extra) | Data Reduction |
| Files and Filetypes for RNA-Seq |
| Project Setup |
| Preprocessing Data |
| Aligners |
| Generating Summarized Counts |
| Salmon | Differential Expression and Pathway Analysis |
| Prepare Differential Expression Analysis |
| Get Gene Annotation |
| Differential Expression Analysis |
| Pathway Analysis |
| Comparison between STAR and Salmon | Support |
| Cheat Sheets |
| Software and Links |
| Scripts | ETC |
| Closing thoughts |
| Workshop Photos |
| Github |
| Biocore website |