☰ Menu

      RNA-Seq Analysis

Home
Introduction and Lectures
Intro to the Workshop and Core
Schedule
What is Bioinformatics/Genomics?
Experimental Design and Cost Estimation
RNA Sequencing Technologies - Dr. Lutz Froenicke
Support
Zoom
Slack
Cheat Sheets
Software and Links
Scripts
Prerequisites
CLI
R
Data Reduction
Files and Filetypes
Prepare dataset
Preprocessing raw data
Indexing a Genome
Alignment with Star
Generating counts tables
Alignment/Counts with Salmon (Extra)
3' TagSeq
Data analysis
Prepare R for data analysis
Annotation from BioMart
Differential Expression Analysis
Pathway Analysis
Comparison between STAR and Salmon
ETC
Closing thoughts
Workshop Photos
Github page
Report Errors
Biocore website

Schedule

All posted times are Pacific time zone. At least one break will be provided each morning and afternoon.

Monday, June 26

8:50 am Zoom session starts
1:00 pm Sequencing technologies and library prep talk by Dr. Eric Chow, Director of CAT at UCSF
5:00 pm Zoom session ends

Tuesday, June 27

8:50 am Zoom session starts
5:00 pm Zoom session ends

Wednesday, June 28

8:50 am Zoom session starts
5:00 pm Zoom session ends

Thursday, June 29

8:50 am Zoom session starts
11:30 pm Full length transcript sequencing talk by PacBio
5:00 pm Zoom session ends

Friday, June 30

8:50 am Zoom session starts
11:00 am Single cell RNASeq technologies talk by 10X
5:00 pm Zoom session ends

Workshop blocks

WF_flowchart