Alternatives and similar repositories for scTDA:

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

• CamaraLab / scTDA
  An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
  ☆51Updated 6 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• wagnerde / STITCH
  Assembles a graph manifold from time series single-cell RNAseq data
  ☆17Updated 3 years ago
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 3 years ago
• MarioniLab / Deconvolution2016
  Code and manuscript files for Aaron and Karsten's deconvolution paper.
  ☆16Updated 6 years ago
• de-Boer-Lab / CisRegModels
  Scripts for building computational models of gene regulation with tensorflow
  ☆27Updated last year
• Tchanders / network_inference_tutorials
  ☆31Updated 5 years ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 4 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 6 years ago
• yanailab / knn-smoothing
  K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data
  ☆54Updated 2 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆32Updated last week
• simslab / scHPF
  Single-cell Hierarchical Poisson Factorization
  ☆68Updated 2 years ago
• kundajelab / coessentiality
  Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)
  ☆27Updated 2 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 2 years ago
• phoenixding / scdiff
  ☆28Updated 4 years ago
• lingfeiwang / findr
  Fast Inference of Networks from Directed Regulations
  ☆21Updated last year
• lkmklsmn / insct
  scRNAseq integration with triplet neural networks
  ☆40Updated 2 years ago
• swoodhouse / SCNS-Toolkit
  Single cell network synthesis toolkit
  ☆23Updated 4 years ago
• gcyuan / SCUBA
  ☆11Updated 2 years ago
• epaull / TieDIE
  Tied Diffusion for Subnetwork Discovery (TieDIE)
  ☆37Updated 3 years ago
• Oshlack / splatter-paper
  Data and analysis for the Splatter paper
  ☆29Updated 7 years ago
• jlakkis / CarDEC
  ☆19Updated 3 years ago
• netZoo / netbooks
  Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..
  ☆40Updated this week
• sbenz / Paradigm
  PAthway Representation and Analysis by Direct Inference on Graphical Models
  ☆44Updated 7 years ago
• thomsonlab / popalign
  ☆11Updated 3 years ago
• cole-trapnell-lab / Scribe
  Regulatory networks with Direct Information
  ☆16Updated 5 years ago
• cole-trapnell-lab / cicero
  ☆12Updated last year
• stracquadaniolab / pygna
  A Python package for gene network analysis
  ☆32Updated 2 years ago
• willtownes / glmpca-py
  generalized principal component analysis (GLM-PCA) implemented in python
  ☆59Updated 4 years ago
• cailab-tamu / scTenifoldNet
  A R/MATLAB package to construct and compare gene regulatory networks from single-cell transcriptomic data
  ☆22Updated 2 months ago