Alternatives and similar repositories for tSNE_vs_UMAP_GlobalStructure

Users that are interested in tSNE_vs_UMAP_GlobalStructure are comparing it to the libraries listed below

• willtownes / glmpca-py
  generalized principal component analysis (GLM-PCA) implemented in python
  ☆61Updated 4 years ago
• NikolayOskolkov / HowUMAPWorks
  Here I explain the math behind UMAP and show how to program it from scratch in Python
  ☆38Updated 4 years ago
• davisidarta / dbMAP
  A fast, accurate, and modularized dimensionality reduction approach based on diffusion harmonics and graph layouts. Escalates to millions…
  ☆48Updated 4 years ago
• flo-compbio / monet
  Monet: An open-source Python package for analyzing scRNA-Seq data using PCA-based latent spaces
  ☆40Updated 4 years ago
• RabadanLab / randomly
  A Library for Denoising Single-Cell Data with Random Matrix Theory
  ☆37Updated 2 years ago
• pachterlab / picasso
  Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.
  ☆71Updated 3 months ago
• KrishnaswamyLab / Multiscale_PHATE
  Creating multi-resolution embeddings and clusters from high dimensional data
  ☆57Updated last year
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆46Updated 2 years ago
• omiq-ai / Multicore-opt-SNE
  Parallel opt-SNE implementation with Python wrapper
  ☆38Updated 3 years ago
• kylessmith / dynamicTreeCut
  Python translation of the hybrid dynamicTreeCut method as created by Peter Langfelder and Bin Zhang.
  ☆41Updated 4 years ago
• ppsp-team / StratiPy
  Graph regularized nonnegative matrix factorization (GNMF) in Python
  ☆46Updated 5 years ago
• pachterlab / MCML
  ☆33Updated 4 years ago
• CamaraLab / scTDA
  An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
  ☆52Updated 7 years ago
• lingfeiwang / findr
  Fast Inference of Networks from Directed Regulations
  ☆22Updated 2 years ago
• ericmjl / flu-sequence-predictor
  An experimental deep learning & genotype network-based system for predicting new influenza protein sequences.
  ☆36Updated 2 years ago
• cantinilab / OT-scOmics
  This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in…
  ☆42Updated 2 years ago
• rongstat / meta-visualization
  A spectral method for assessing and combining multiple data visualizations
  ☆50Updated 2 years ago
• dkobak / finer-tsne
  Code for the paper on t-SNE with variable degree of freedom
  ☆25Updated 5 years ago
• davisidarta / topometry
  Systematically learn and evaluate manifolds from high-dimensional data
  ☆104Updated 3 months ago
• KlugerLab / t-SNE-Heatmaps
  Beta version of 1D t-SNE heatmaps to visualize expression patterns of hundreds of genes simultaneously in scRNA-seq
  ☆48Updated 6 years ago
• abidlabs / contrastive
  Contrastive PCA
  ☆231Updated 3 months ago
• KrishnaswamyLab / graphtools
  Tools for building and manipulating graphs in Python
  ☆46Updated 3 weeks ago
• kharchenkolab / vrnmf
  Volume-regularized NMF
  ☆18Updated 3 years ago
• greenelab / BioBombe
  BioBombe: Sequentially compressed gene expression features enhances biological signatures
  ☆65Updated last year
• berenslab / ne-spectrum
  Attraction-Repulsion Spectrum in Neighbor Embeddings
  ☆31Updated 3 years ago
• berenslab / rna-seq-tsne
  The art of using t-SNE for single-cell transcriptomics
  ☆130Updated last year
• solevillar / scGeneFit-python
  Python code for genetic marker selection using linear programming
  ☆42Updated last year
• yangzi4 / iNMF
  Source code for integrative nonnegative matrix factorization
  ☆19Updated 7 years ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆76Updated 3 months ago
• p-koo / deepomics
  deep learning toolkit (written on top of tensorflow) to streamline computational biology analysis
  ☆22Updated 2 years ago