scRNAseq_Workshop_downloading_data

SetUp

• open Rstudio
• follow instructions to install R and Rstudio if needed
• http://mixomics.org/wp-content/uploads/2016/09/Installation-guide-for-R-and-RStudio.pdf

Make new directory

• Create a directory to store workshop datasets and R code
• this can be done by right clicking and selecting ‘New Folder’
• Alternitively this can also be done within Rstudio, using the unix/bash ‘Terminal’ - the tab next to ‘Console’

mkdir -p ~/Documents/scrna-seq_workshop

download Data

• links to the datasets are via the following one drive address,

• https://sahmrionline-my.sharepoint.com/:f:/g/personal/cathal_king_sahmri_com/EnnB7Iwxn25HtwACcTXD8ZkBr8YLjk61-FxGEPE-vPdLyQ?e=roceOt

• click ‘Download’ and copy the data to the workshop directory, e.g. ~/Documents/scrna-seq_workshop

check data, unzip if needed

cd ~/Documents/scrna-seq_workshop/

#unzip Workshop_scRNA-seq.zip

set as working directory in Rstudio

setwd('~/Documents/scrna-seq_workshop')