Dimensionality Reduction Python Packages

umap-learn

Uniform Manifold Approximation and Projection

opentsne

Extensible, parallel implementations of t-SNE

palantir

Single cell trajectory detection

minisom

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

scikit-fda

Functional Data Analysis Python package

phate

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

augmented-pca

Repository for the AugmentedPCA Python package.

pymde

Minimum-distortion embedding with PyTorch

torchdr

TorchDR - PyTorch Dimensionality Reduction

pymorton

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

protspace

Explore protein language model embeddings in your browser — surface relationships sequence similarity misses, overlay annotations, and transfer labels (EAT). Nothing uploaded.

protlabel

Explore protein language model embeddings in your browser — surface relationships sequence similarity misses, overlay annotations, and transfer labels (EAT). Nothing uploaded.

simpsom

Python library for Self-Organizing Maps

fabba

A Python library for the fast symbolic approximation of time series

xeofs

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

manifold-genetics

An end-to-end pipeline from PLINK genotypes to publication-ready visualizations.

topometry

Systematically learn and evaluate the latent geometry of high-dimensional data, with a focus on scRNAseq analysis

zadu

A Python Library for Evaluating the Reliability of Dimensionality Reduction Embeddings

driada

Dimensionality Reduction for Integrated Activity Data Analysis

ivis

Dimensionality reduction in very large datasets using Siamese Networks

adnmtf

Non-Negative Matrix and Tensor Factorizations

msmbuilder

:building_construction: Statistical models for biomolecular dynamics :building_construction:

robustmodelmaker

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

timecorr

Estimate dynamic high-order correlations in multivariate timeseries data