Raw Data:

The raw data used in this sesseion are collected from sorted CD45+ immune cells of mouse C57BL/6 colon.
Platform: 10x genomics (3' scRNAseq v2 kits)
TotalSeq Antibodies: Type A from Biolegend
These data are never used for publication yet. So, please use only within this session.
If you want to use the data for your own purpose, please let BK know for discussion.

Prerequisites:

Install R >= version 3.4: https://www.r-project.org/
Install Rstudio Desktop (Free): https://rstudio.com/products/rstudio/download/

Install Bioconductor:

if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install(version = "3.11")

Update core packages from Bioconductor:

if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install()

How to Install R Packages:

1. By Bioconductor – https://www.bioconductor.org/
2. By install.packages()
3. From developmental tools – devtools()
4. From downloaded files

Required R packages:

Go to Seurat website: https://satijalab.org/seurat/install.html
Install the following packages:
(‘Seurat’, ‘dplyr’,’ggplot2’,’patchwork’)

Ready to go!!