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      Fall single cell RNA sequencing workshop @ UCSF

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Introduction and Lectures
Intro to the Workshop and Core
What is Bioinformatics/Genomics Perspective?
Experimental Design and Cost Estimation
Introduction to Command-Line and the Cluster
Logging in and Transferring Files
Intro to Command-Line
Advanced Command-Line (extra)
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
Project setup
Generating Expression Matrix
scRNAseq Analysis
Prepare scRNAseq Analysis
scRNAseq Analysis - PART1
scRNAseq Analysis - PART2
scRNAseq Analysis - PART3
scRNAseq Analysis - PART4
scRNAseq Analysis - PART5
scRNAseq Analysis - PART6
Guest lecture by Dr. Gerald Quon
Prepare Single Cell Alignment
Single Cell Alignment (scAlign)
Support
Cheat Sheets
Software and Links
Scripts
ETC
Closing thoughts
Workshop Photos
Github
Biocore website

Reference Cheat Sheets

Unix

Introduction to RStudio

Introduction to R

Data Import/Transformation and Visualization

R Markdown