𝐄𝐱𝐩𝐢𝐌𝐚𝐩 𝐢𝐬 𝐚 𝐛𝐢𝐨𝐥𝐨𝐠𝐢𝐜𝐚𝐥𝐥𝐲 𝐢𝐧𝐟𝐨𝐫𝐦𝐞𝐝 𝐝𝐞𝐞𝐩-𝐥𝐞𝐚𝐫𝐧𝐢𝐧𝐠 𝐚𝐫𝐜𝐡𝐢𝐭𝐞𝐜𝐭𝐮𝐫𝐞 𝐭𝐡𝐚𝐭 𝐞𝐧𝐚𝐛𝐥𝐞𝐬 𝐬𝐢𝐧𝐠𝐥𝐞-𝐜𝐞𝐥𝐥 𝐫𝐞𝐟𝐞𝐫𝐞𝐧𝐜𝐞 𝐦𝐚𝐩𝐩𝐢𝐧𝐠

• ExpiMap learns to map cells into biologically understandable components representing known ‘gene programs’. The activity of each cell for a gene program is learned while simultaneously refining them and learning de novo programs.

• ExpiMap compares favourably to existing methods while bringing an additional layer of interpretability to integrative single-cell analysis. It is applicable to analyse single-cell perturbation responses in different tissues and species and resolve responses of patients who have coronavirus disease 2019 to different treatments across cell types.

➡ ExpiMap is available as a part of:

https://docs.scarches.org/en/latest/index.html

This Expimap algorithm is installed used a conda environment. Use the following command:

conda create -n scarches python=3.9
conda activate scarches
conda install jupyter pandas numpy matplotlib pytorch 
pip install scarches