CytoTIL15 Manuscript - Analyses and data

Analyses and intermediate data files used for the CytoTIL15 manuscript.

Set up for analyses

Jupyter notebook

The (mini)conda environment that has been used for the analyses is available as a YAML file: conda-environment.yaml.

The analysis notebooks minimally require the environment defined by following packages:

• jupyter
• r-irkernel
• r-tidyverse
• r-ggrepel
• r-beeswarm
• bioconductor-edger
• bioconductor-limma

Once the conda enviroment is ready and activated, a standard Jupyter notebook environment is all required to replicate the computational analyses:

$ jupyter notebook

All data required for the analyses is included in the repository.

Command line

LICENSE

CytoTIL15 manuscript - computational work © 2023 by Arman Aksoy (Obsidian Therapeutics) is licensed under CC BY-NC-SA 4.0.