Alternatives and similar repositories for HAL

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

• swoodhouse / SCNS-Toolkit
  Single cell network synthesis toolkit
  ☆23Updated 4 years ago
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 4 years ago
• phievo / phievo
  Software for in silico evolution - Paul François' group McGill University
  ☆10Updated 3 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 2 months ago
• CamaraLab / scTDA
  An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
  ☆52Updated 7 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆36Updated 2 months ago
• Tchanders / NetworkInference.jl
  Methods for inferring undirected networks from data
  ☆46Updated 4 years ago
• cbg-ethz / SCATrEx
  Map single-cell transcriptomes to copy number evolutionary trees.
  ☆14Updated last year
• maclean-lab / RVAgene
  Recurrent Variational Auto gene encoder
  ☆20Updated 2 years ago
• kazumits / ddhodge
  Modeling Latent Flow Structure using Hodge Decomposition
  ☆13Updated 9 months ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 7 years ago
• netZoo / netbooks
  Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..
  ☆45Updated last month
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆55Updated 2 years ago
• ismms-himc / visium-clustergrammer2
  Spatial Transcriptomics Dashboard
  ☆27Updated 2 years ago
• stanleyn / Comp790-166-Comp-Bio
  Computational Biology- Spring 2021
  ☆48Updated 4 years ago
• simslab / scHPF
  Single-cell Hierarchical Poisson Factorization
  ☆73Updated 3 years ago
• krassowski / gsea-api
  Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)
  ☆15Updated 2 years ago
• ulysseherbach / harissa
  Simulation and inference of gene regulatory networks based on transcriptional bursting
  ☆12Updated last month
• gitter-lab / ssps
  Sparse Signaling Pathway Sampling: MCMC for signaling pathway inference
  ☆14Updated 3 years ago
• PhysiBoSS / PhysiBoSS
  PhysiBoSS 2.0: a sustainable integration of stochastic Boolean and agent-based modelling frameworks
  ☆29Updated this week
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆20Updated 2 months ago
• vahuynh / dynGENIE3
  Semi-parametric approach for the inference of gene regulatory networks from time series of expression data
  ☆27Updated 5 months ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆76Updated 2 months ago
• solevillar / scGeneFit-python
  Python code for genetic marker selection using linear programming
  ☆42Updated last year
• willtownes / glmpca-py
  generalized principal component analysis (GLM-PCA) implemented in python
  ☆60Updated 4 years ago
• AllonKleinLab / PBA
  Population balance analysis
  ☆44Updated 6 years ago
• SydneyBioX / SimBench
  ☆17Updated last year
• pachterlab / monod
  The Monod package fits CME models to sequencing data.
  ☆33Updated 2 months ago
• pachterlab / MCML
  ☆33Updated 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