Tissue-specific transcriptional imprinting and heterogeneity in human innate lymphoid cells revealed by full-length single-cell RNA-sequencing
Repository contacting the code related to the article "Tissue-specific transcriptional imprinting and heterogeneity in human innate lymphoid cells revealed by full-length single-cell RNA-sequencing" Mazzurana, Czarnewski et al (2020) Cell Research
The analysis done herein can be reproduced by installing conda and running the run_workflow.sh script. It will download the dataset from GEO (GSE150050), the scripts from Sauron.
- Clone this repository
git clone https://github.com/czarnewski/ilc_tissue_imprinting.git
- Create and activate the conda environment
cd ilc_tissue_imprinting
conda activate base
conda install -c conda-forge mamba
mamba env create -n ilc_tissue_imprinting -f sauron_environment_20201209.yml
conda activate ilc_tissue_imprinting
- Run the analysis workflow
sh run_workflow.sh