.gitignore
LICENSE.txt
README.md
SCALEX.py
requirements.txt
setup.py
docs/Makefile
docs/make.bat
docs/source/conf.py
docs/source/contributors.rst
docs/source/index.rst
docs/source/installation.rst
docs/source/news.rst
docs/source/usage.rst
docs/source/_static/.DS_Store
docs/source/_static/img/.DS_Store
docs/source/_static/img/cross-modality_integration.png
docs/source/_static/img/logo_white.png
docs/source/_static/img/mouse_atlas_reference.png
docs/source/_static/img/pancreas_projection.png
docs/source/_static/img/pbmc_before_integration.png
docs/source/_static/img/pbmc_integration.png
docs/source/_static/img/query_kidney.png
docs/source/_static/img/query_tabula_muris_aging.png
docs/source/_static/img/scATAC_integration.png
docs/source/_static/img/scalex.jpg
docs/source/api/index.rst
docs/source/release/1.0.0.rst
docs/source/release/index.rst
docs/source/tutorial/Integration_PBMC.ipynb
docs/source/tutorial/Integration_cross-modality.ipynb
docs/source/tutorial/Integration_scATAC-seq.ipynb
docs/source/tutorial/Projection_pancreas.ipynb
docs/source/tutorial/index.rst
experiments/LISI.ipynb
experiments/NMI-ARI.ipynb
experiments/Silhouette_score & batch_entropy_mixing_score.ipynb
experiments/dirichlet_regression.ipynb
experiments/overcorrection_score.ipynb
experiments/projection.ipynb
scalex/__init__.py
scalex/data.py
scalex/function.py
scalex/logger.py
scalex/metrics.py
scalex/plot.py
scalex.egg-info/PKG-INFO
scalex.egg-info/SOURCES.txt
scalex.egg-info/dependency_links.txt
scalex.egg-info/requires.txt
scalex.egg-info/top_level.txt
scalex/net/__init__.py
scalex/net/layer.py
scalex/net/loss.py
scalex/net/utils.py
scalex/net/vae.py
third_parties/BBKNN.py
third_parties/Conos.R
third_parties/DESC.py
third_parties/FastMNN.R
third_parties/Harmony.R
third_parties/LIGER.R
third_parties/Raw.py
third_parties/Scanorama.py
third_parties/Seurat_v3.R
third_parties/online_iNMF.R
third_parties/scVI.py