Alternatives and similar repositories for topometry

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

• pachterlab / picasso
  Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.
  ☆70Updated last week
• willtownes / glmpca-py
  generalized principal component analysis (GLM-PCA) implemented in python
  ☆59Updated 4 years ago
• cantinilab / Mowgli
  Single-cell multi-omics integration using Optimal Transport
  ☆46Updated last month
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆37Updated last week
• 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
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆74Updated 2 weeks ago
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆110Updated last year
• KrishnaswamyLab / graphtools
  Tools for building and manipulating graphs in Python
  ☆43Updated last month
• CamaraLab / scTDA
  An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
  ☆52Updated 7 years ago
• pachterlab / MCML
  ☆33Updated 4 years ago
• rongstat / meta-visualization
  A spectral method for assessing and combining multiple data visualizations
  ☆50Updated 2 years ago
• KrishnaswamyLab / Multiscale_PHATE
  Creating multi-resolution embeddings and clusters from high dimensional data
  ☆56Updated last year
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 4 years ago
• berenslab / umi-normalization
  Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…
  ☆40Updated 3 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• andrewcharlesjones / spatial-alignment
  Alignment of spatial genomics data using deep Gaussian processes
  ☆32Updated 2 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
• quadbio / latent-lego
  Latent spaces for single cells
  ☆21Updated last year
• ismms-himc / visium-clustergrammer2
  Spatial Transcriptomics Dashboard
  ☆27Updated 2 years ago
• omiq-ai / Multicore-opt-SNE
  Parallel opt-SNE implementation with Python wrapper
  ☆37Updated 3 years ago
• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆62Updated last year
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆20Updated 2 weeks ago
• bioFAM / mofaflex
  factor models for omics data
  ☆17Updated last week
• NikolayOskolkov / tSNE_vs_UMAP_GlobalStructure
  Here we address the global structure preservation by tSNE and UMAP
  ☆47Updated 5 years ago
• netZoo / netZooPy
  netZooPy is a network biology package implemented in Python.
  ☆90Updated 3 months ago
• cbg-ethz / dce
  Finding the causality in biological pathways
  ☆13Updated 2 years ago
• RabadanLab / randomly
  A Library for Denoising Single-Cell Data with Random Matrix Theory
  ☆37Updated 2 years ago
• calico / scmmd
  Maximum mean discrepancy comparisons for single cell profiling experiments
  ☆18Updated 3 years ago
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆49Updated 11 months ago