Dimensionality Reduction Python Packages

umap-learn

Uniform Manifold Approximation and Projection

opentsne

Extensible, parallel implementations of t-SNE

minisom

:red_circle: MiniSom is a minimalistic implementation of the Self Organizing Maps

scikit-fda

Functional Data Analysis Python package

pymorton

A lightweight and efficient Python Morton encoder with support for geo-hashing

pymde

Minimum-distortion embedding with PyTorch

phate

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.

palantir

Single cell trajectory detection

sphereql

Spherical coordinate knowledge representation — fast semantic search, visualization, and analysis

augmented-pca

Repository for the AugmentedPCA Python package.

xeofs

Comprehensive EOF analysis in Python with xarray: A versatile, multidimensional, and scalable tool for advanced climate data analysis

fabba

A Python library for the fast symbolic approximation of time series

torchdr

TorchDR - PyTorch Dimensionality Reduction

driada

Dimensionality Reduction for Integrated Activity Data Analysis

ivis

Dimensionality reduction in very large datasets using Siamese Networks

robustmodelmaker

Coupling Bootstrap Stability Selection with Leakage-Safe Nested Cross-Validation for Scientific Machine Learning

simpsom

Python library for Self-Organizing Maps

dpca

An implementation of demixed Principal Component Analysis (a supervised linear dimensionality reduction technique)

encodermap

python library for dimensionality reduction

adnmtf

Non-negative Matrix and Tensor Factorization

chemplot

A python package for chemical space visualization.

featuremap

FeatureMAP (Feature-preserving Manifold Approximation and Projection) is an interpratable dimensionality reduction tool.

mlx-vis

Pure MLX implementations of UMAP, t-SNE, PaCMAP, TriMap, DREAMS, CNE, MMAE, and NNDescent for Apple Silicon. Metal GPU for computation and video rendering.

msmbuilder

:building_construction: Statistical models for biomolecular dynamics :building_construction: