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      Single Cell RNA-Seq Analysis

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Introduction and Lectures
Intro to the Workshop
Daily Tasks
Support
Cheat Sheets
Software and Links
Scripts
Prerequisites, R
R
scRNAseq Analysis
Prepare scRNAseq Analysis
scRNAseq Analysis - PART1
scRNAseq Analysis - PART2
scRNAseq Analysis - PART3
scRNAseq Analysis - PART4
scRNAseq Analysis - PART5
scRNAseq Analysis - PART6
scRNAseq Analysis - PART7
Prerequisites, CLI
CLI
Data Reduction
Files and Filetypes
Project setup
Generating Expression Matrix
ETC
Closing thoughts
Discussions Page
Github page

Software and Links

Linux Terminal:

  1. Shell for Windows 10 tutorial
  2. Enable SSH tutorial OR
  3. MobaXterm
  4. PuTTY

R and RStudio

  1. R project
  2. RStudio Desktop
    Also see this link if you have trouble installing under Ubuntu
  3. Seurat

Single cell Resources

  1. 10x Cell Ranger
  2. Awesome Singlecell
  3. Satija Lab - how many cells
  4. Satija Lab - cost per cell