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densitree 0.1.0 documentation

  • GitHub
  • PyPI
  • GitHub
  • PyPI

Getting Started

  • Installation
  • Quick Start

User Guide

  • densitree User Guide

Tutorials

  • Tutorial: Flow Cytometry Analysis with densitree
  • Tutorial: Comparing Conditions

API Reference

  • SPADE
  • SPADEResult
  • Pipeline Steps
  • Plotting

Benchmarks

  • Benchmarks Overview
  • Benchmark Datasets
  • Benchmark Results
  • Method Comparison

Method

  • The SPADE Algorithm
  • Improvements over Standard SPADE
  • References

Index

B | C | D | F | L | M | N | P | R | S | T | U | X

B

  • BaseStep (class in densitree.steps.base)

C

  • cluster_stats_ (densitree.result.SPADEResult property)
  • ClusterStep (class in densitree.steps.cluster)

D

  • DensityEstimator (class in densitree.steps.density)
  • down_idx (densitree.result.SPADEResult attribute)
  • DownsampleStep (class in densitree.steps.downsample)

F

  • feature_names (densitree.result.SPADEResult attribute)
  • fit() (densitree.spade.SPADE method)
  • fit_predict() (densitree.spade.SPADE method)

L

  • labels_ (densitree.result.SPADEResult attribute)

M

  • MSTBuilder (class in densitree.steps.mst)

N

  • n_features (densitree.result.SPADEResult attribute)

P

  • plot_tree() (densitree.result.SPADEResult method)
    • (in module densitree.plot.matplotlib)
    • (in module densitree.plot.plotly)

R

  • run() (densitree.steps.base.BaseStep method)
    • (densitree.steps.cluster.ClusterStep method)
    • (densitree.steps.density.DensityEstimator method)
    • (densitree.steps.downsample.DownsampleStep method)
    • (densitree.steps.mst.MSTBuilder method)
    • (densitree.steps.upsample.UpsampleStep method)

S

  • SPADE (class in densitree.spade)
  • SPADEResult (class in densitree.result)

T

  • tree_ (densitree.result.SPADEResult attribute)

U

  • UpsampleStep (class in densitree.steps.upsample)

X

  • X_down (densitree.result.SPADEResult attribute)
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