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General
Installation
API
Preprocessing:
pp
patpy.pp.prepare_data_for_phemd
patpy.pp.convert_cell_types_to_phemd_format
patpy.pp.calculate_compositional_metrics
patpy.pp.calculate_cell_qc_metrics
patpy.pp.calculate_n_cells_per_sample
patpy.pp.filter_small_samples
patpy.pp.filter_small_cell_groups
patpy.pp.subsample
patpy.pp.is_count_data
patpy.pp.fill_nan_distances
Tools:
tl
patpy.tl.PILOT
patpy.tl.GroupedPseudobulk
patpy.tl.CellGroupComposition
patpy.tl.MrVI
patpy.tl.RandomVector
patpy.tl.SCPoli
patpy.tl.Pseudobulk
patpy.tl.WassersteinTSNE
patpy.tl.SampleRepresentationMethod
patpy.tl.describe_metadata
patpy.tl.test_distances_significance
patpy.tl.predict_knn
patpy.tl.evaluate_prediction
patpy.tl.test_proportions
patpy.tl.evaluate_representation
Plotting:
pl
Contributing guide
Changelog
References
Gallery
Tutorials
Using sample representation methods
Understanding sources of variation in single-cell data with GloScope
Patient trajectory analysis
Using supervised sample-level methods
Synthetic data generation
Statistical test for the distances between samples from case and control groups
About
GitHub
.md
.pdf
Plotting: pl
Plotting:
pl
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