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      Advanced Topics in Single Cell RNA-Seq: scATAC Analysis

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Introduction and Lectures
Intro to the Workshop and Core
Schedule
What is Bioinformatics/Genomics?
Experimental Design and Cost Estimation
Support
Slack
Zoom
Cheat Sheets
Software and Links
Scripts
Files and Filetypes
Prerequisites
CLI
R
scATAC
Data Reduction
Data Analysis
ETC
Closing thoughts
Workshop Photos
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