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R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)

scGEAToolbox: Matlab toolbox for single-cell gene expression analyses

workflow matlab scrna-seq analyses single-cell rna-seq-analysis tsne matlab-toolbox trajectory dimensionality phate demo-scripts

Various embedding methods such as UMAP, tSNE, diffusion maps etc. implemented in Rust. Now with Python bindings

rust tsne diffusion-maps manifold-learning umap phate pacmap

Various 2D embedding methods (and some clustering algorithms) in R, powered by Rust

rust r single-cell tsne umap phate

A study of non-linear manifold feature extraction in spike sorting: a comprehensive benchmark of 15 feature extraction methods

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