-
Cellranger (from 10x Genomics) >= version 3
-
Python3
-
Python3 libraries
- please see python/requirements.txt
- to install use the command "pip install -r tenx/python/requirements.txt"
-
The dropEst pipeline (https://github.com/hms-dbmi/dropEst) or velocyto for RNA velocity analysis
-
The cgat-core pipeline system and a compatible queue manager
-
R >= 4.0
-
R libraries
- Make sure you have the "Biocmanager" and "devtools" packages installed
- then please see R/install.packages.R
- all the required libaries can be installed with the command "Rscript install tenx/R/install.packages.R"
-
Latex