.gitignore
CHANGES.md
LICENSE
README.md
setup.py
images/monet_logo_25perc.jpg
monet/__init__.py
monet.egg-info/PKG-INFO
monet.egg-info/SOURCES.txt
monet.egg-info/dependency_links.txt
monet.egg-info/entry_points.txt
monet.egg-info/requires.txt
monet.egg-info/top_level.txt
monet/batch_correct/__init__.py
monet/batch_correct/mnn.py
monet/cluster/__init__.py
monet/cluster/density.py
monet/cluster/diff_exp.py
monet/cluster/graph.py
monet/cluster/hierarchical.py
monet/cluster/util.py
monet/core/__init__.py
monet/core/exp_matrix.py
monet/core/exp_profile.py
monet/data/RdBu_r_colormap.tsv
monet/data/gene_lists/mitochondrial_human.txt
monet/data/gene_lists/mitochondrial_mouse.txt
monet/data/gene_lists/mitochondrial_zebrafish.txt
monet/data/gene_lists/mt_ribosomal_human.txt
monet/data/gene_lists/ribosomal_human.txt
monet/data/gene_lists/ribosomal_mouse.txt
monet/data/gene_lists/ribosomal_zebrafish.txt
monet/data/test/pbmc_100_compressed_data.pickle
monet/data/test/pbmc_100_decompressed_expression.npz
monet/data/test/pbmc_100_denoised_expression.npz
monet/data/test/pbmc_100_expression.npz
monet/data/test/pbmc_100_expression.tsv
monet/data/test/pbmc_100_pc1_restored_expression.npz
monet/data/test/pbmc_100_pc1_scores.tsv
monet/data/test/pbmc_100_pca_model.pickle
monet/data/test/pbmc_1k_expression.npz
monet/data/test/pbmc_1k_v3_filtered_feature_bc_matrix.tar.gz
monet/denoise/__init__.py
monet/denoise/cli.py
monet/denoise/enhance_model.py
monet/denoise/mcv.py
monet/denoise/util.py
monet/enrichment/__init__.py
monet/enrichment/enrichment_model.py
monet/enrichment/gene_set.py
monet/enrichment/gene_set_collection.py
monet/enrichment/result.py
monet/enrichment/util.py
monet/helper/__init__.py
monet/helper/helper.py
monet/label_transfer/__init__.py
monet/label_transfer/knn.py
monet/latent/__init__.py
monet/latent/compressed_data.py
monet/latent/monet_model.py
monet/latent/pca_model.py
monet/latent/util.py
monet/ontology/__init__.py
monet/ontology/gene_ontology.py
monet/ontology/go_annotation.py
monet/ontology/go_term.py
monet/ontology/util.py
monet/preprocess/__init__.py
monet/preprocess/preprocess.py
monet/preprocess/qc.py
monet/simulate/__init__.py
monet/simulate/sim_enhance.py
monet/util/__init__.py
monet/util/annotations.py
monet/util/data.py
monet/util/expression.py
monet/util/fdr.py
monet/util/files.py
monet/util/genes.py
monet/util/logging.py
monet/util/sample.py
monet/velocyto/__init__.py
monet/velocyto/data.py
monet/velocyto/util.py
monet/visualize/__init__.py
monet/visualize/cells.py
monet/visualize/genes.py
monet/visualize/heatmap.py
monet/visualize/plotly_subtype.py
monet/visualize/tsne.py
monet/visualize/umap.py
monet/visualize/util.py
monet/workflows/__init__.py
monet/workflows/clustering.py
monet/workflows/denoising.py
monet/workflows/heatmap.py
monet/workflows/nonlinear.py
monet/workflows/preprocess.py
monet/workflows/scvelo.py
monet/workflows/util.py
tests/conftest.py
tests/pytest.ini
tests/core/test_exp_matrix.py
tests/denoise/conftest.py
tests/denoise/test_cli.py
tests/denoise/test_compressed_data.py
tests/denoise/test_enhance.py
tests/latent/test_pca_model.py