Tsne Python Packages

opentsne

Extensible, parallel implementations of t-SNE

torchdr

TorchDR - PyTorch Dimensionality Reduction

tsnecuda

GPU Accelerated t-SNE for CUDA with Python bindings

scarf

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

multicoretsne

Parallel t-SNE implementation with Python and Torch wrappers.

embeddings2image

create "Karpathy's style" 2d images out of your image embeddings

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.

dire-jax

A JAX-based Dimension Reducer

tsne-torch

CUDA-accelerated PyTorch implementation of t-SNE

knrscore

KNRScore is a Python package for computing K-Nearest-Rank Similarity, a metric that quantifies local structural similarity between two maps or embeddings.

scarf-toolkit

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.