Alternatives and similar repositories for SERGIO:

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

• Murali-group / BoolODE
  Git Repo for simulating Boolean Models
  ☆33Updated 9 months ago
• Genentech / sVAE
  ☆58Updated last year
• dynverse / dyngen
  Simulating single-cell data using gene regulatory networks 📠
  ☆74Updated last year
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆150Updated 2 years ago
• romain-lopez / scVI-reproducibility
  Reproducing the experiments of the paper "Deep generative modeling for single-cell transcriptomics"
  ☆56Updated 6 years ago
• HantaoShu / DeepSEM
  ☆73Updated last year
• YosefLab / SymSim
  ☆24Updated 5 months ago
• const-ae / linear_perturbation_prediction-Paper
  ☆18Updated last month
• vandijklab / CINEMA-OT
  ☆30Updated 4 months ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated 2 years ago
• altoslabs / perturbench
  ☆23Updated 2 months ago
• TuftsBCB / RegDiffusion
  Diffusion model for gene regulatory network inference.
  ☆16Updated last week
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆49Updated 3 years ago
• bunnech / cellot
  Learning Single-Cell Perturbation Responses using Neural Optimal Transport
  ☆126Updated 4 months ago
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆46Updated 2 months ago
• yulun-rayn / graphVCI
  This repository implements Graph Variational Causal Inference (graphVCI), a framework that integrates prior knowledge of relational infor…
  ☆15Updated last month
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated this week
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆59Updated 2 years ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆40Updated last year
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆106Updated 5 months ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆114Updated 3 weeks ago
• klarman-cell-observatory / scPhere
  ☆98Updated last year
• willtownes / nsf-paper
  Nonnegative spatial factorization for multivariate count data
  ☆57Updated last year
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆97Updated 7 months 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…
  ☆38Updated 2 years ago
• rsinghlab / SCOT
  Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data
  ☆69Updated last year
• caokai1073 / Pamona
  The software of Pamona, a partial manifold alignment algorithm.
  ☆19Updated 4 years ago
• decomverse / ACTIONet
  ACTIONet single-cell analysis framework
  ☆38Updated 6 months ago
• AltschulerWu-Lab / scScope
  ☆49Updated 5 years ago
• thomasmaxwellnorman / Perturbseq_GI
  Code for reproducing "Exploring genetic interaction manifolds constructed from rich single-cell phenotypes"
  ☆51Updated 4 years ago