Introduction to single cell RNAseq data analysis and interpretation coursework material provided by Harvard Informatics Team.
Get the material in this repository
git clone https://github.com/yasinkaymaz/singleCellRNAseq_workshop.git
Prepare R/Rstudio environment
For Seurat, follow the instructions: https://satijalab.org/seurat/install.html or simply
# Enter commands in R (or R studio, if installed)
install.packages('Seurat')
source("https://bioconductor.org/biocLite.R")
biocLite("SIMLR")
library(Seurat)
library(Matrix)
library(dplyr)
library(SIMLR)
Download the datasets into your ~/Downloads folder.
cd ~/Downloads
wget https://ifx.rc.fas.harvard.edu/pub/bionano2018/scRNAseqWS.zip
unzip scRNAseqWS.zip
Follow the tutorial in workshop-workflow.html