๐๐ฑ๐ฉ๐ข๐๐๐ฉ ๐ข๐ฌ ๐ ๐๐ข๐จ๐ฅ๐จ๐ ๐ข๐๐๐ฅ๐ฅ๐ฒ ๐ข๐ง๐๐จ๐ซ๐ฆ๐๐ ๐๐๐๐ฉ-๐ฅ๐๐๐ซ๐ง๐ข๐ง๐ ๐๐ซ๐๐ก๐ข๐ญ๐๐๐ญ๐ฎ๐ซ๐ ๐ญ๐ก๐๐ญ ๐๐ง๐๐๐ฅ๐๐ฌ ๐ฌ๐ข๐ง๐ ๐ฅ๐-๐๐๐ฅ๐ฅ ๐ซ๐๐๐๐ซ๐๐ง๐๐ ๐ฆ๐๐ฉ๐ฉ๐ข๐ง๐
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ExpiMap learns to map cells into biologically understandable components representing known โgene programsโ. The activity of each cell for a gene program is learned while simultaneously refining them and learning de novo programs.
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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.
โก 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