scranpy package
===============

Submodules
----------

scranpy.adt\_quality\_control module
------------------------------------

.. automodule:: scranpy.adt_quality_control
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scranpy.aggregate\_across\_cells module
---------------------------------------

.. automodule:: scranpy.aggregate_across_cells
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scranpy.aggregate\_across\_genes module
---------------------------------------

.. automodule:: scranpy.aggregate_across_genes
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scranpy.analyze module
----------------------

.. automodule:: scranpy.analyze
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scranpy.build\_snn\_graph module
--------------------------------

.. automodule:: scranpy.build_snn_graph
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scranpy.center\_size\_factors module
------------------------------------

.. automodule:: scranpy.center_size_factors
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scranpy.choose\_highly\_variable\_genes module
----------------------------------------------

.. automodule:: scranpy.choose_highly_variable_genes
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scranpy.choose\_pseudo\_count module
------------------------------------

.. automodule:: scranpy.choose_pseudo_count
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scranpy.cluster\_graph module
-----------------------------

.. automodule:: scranpy.cluster_graph
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scranpy.cluster\_kmeans module
------------------------------

.. automodule:: scranpy.cluster_kmeans
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scranpy.combine\_factors module
-------------------------------

.. automodule:: scranpy.combine_factors
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scranpy.compute\_clrm1\_factors module
--------------------------------------

.. automodule:: scranpy.compute_clrm1_factors
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scranpy.correct\_mnn module
---------------------------

.. automodule:: scranpy.correct_mnn
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scranpy.crispr\_quality\_control module
---------------------------------------

.. automodule:: scranpy.crispr_quality_control
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scranpy.fit\_variance\_trend module
-----------------------------------

.. automodule:: scranpy.fit_variance_trend
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scranpy.lib\_scranpy module
---------------------------

.. automodule:: scranpy.lib_scranpy
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scranpy.model\_gene\_variances module
-------------------------------------

.. automodule:: scranpy.model_gene_variances
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scranpy.normalize\_counts module
--------------------------------

.. automodule:: scranpy.normalize_counts
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scranpy.rna\_quality\_control module
------------------------------------

.. automodule:: scranpy.rna_quality_control
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scranpy.run\_all\_neighbor\_steps module
----------------------------------------

.. automodule:: scranpy.run_all_neighbor_steps
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scranpy.run\_pca module
-----------------------

.. automodule:: scranpy.run_pca
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scranpy.run\_tsne module
------------------------

.. automodule:: scranpy.run_tsne
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scranpy.run\_umap module
------------------------

.. automodule:: scranpy.run_umap
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scranpy.sanitize\_size\_factors module
--------------------------------------

.. automodule:: scranpy.sanitize_size_factors
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scranpy.scale\_by\_neighbors module
-----------------------------------

.. automodule:: scranpy.scale_by_neighbors
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scranpy.score\_gene\_set module
-------------------------------

.. automodule:: scranpy.score_gene_set
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scranpy.score\_markers module
-----------------------------

.. automodule:: scranpy.score_markers
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scranpy.subsample\_by\_neighbors module
---------------------------------------

.. automodule:: scranpy.subsample_by_neighbors
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scranpy.summarize\_effects module
---------------------------------

.. automodule:: scranpy.summarize_effects
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scranpy.test\_enrichment module
-------------------------------

.. automodule:: scranpy.test_enrichment
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Module contents
---------------

.. automodule:: scranpy
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