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      Advanced Topics in Single Cell RNA-Seq: VDJ

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Introduction and Lectures
Intro to the Workshop and Core
Schedule
Support
Using Slack in this workshop
Using Zoom in this workshop
Cheat Sheets
Software and Links
Scripts
Prerequisites
CLI
R
VDJ
Data Reduction
Data Analysis
ETC
Closing thoughts
Github page
Biocore website

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