Alternatives and similar repositories for sc-pert

Users that are interested in sc-pert are comparing it to the libraries listed below

• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆124Updated 2 months ago
• nitzanlab / biolord
  ☆78Updated 9 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆58Updated this week
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆62Updated 2 years ago
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆188Updated this week
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆130Updated 2 years ago
• HelloWorldLTY / scEval
  Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.
  ☆69Updated 3 months ago
• scverse / pertpy
  Perturbation Analysis in the scverse ecosystem.
  ☆173Updated this week
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆100Updated 9 months ago
• xianglin226 / Benchmarking-Single-Cell-Perturbation
  Single-Cell (Perturbation) Model Library
  ☆59Updated last month
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆140Updated last year
• cantinilab / scPRINT
  single cell foundation model for Gene network inference and more
  ☆76Updated last week
• Durenlab / LINGER
  ☆103Updated last week
• openproblems-bio / openproblems-v2
  Formalizing and benchmarking open problems in single-cell genomics
  ☆56Updated 5 months ago
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆50Updated 3 years ago
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated last year
• snap-stanford / SATURN
  ☆124Updated 10 months ago
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆91Updated last month
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆112Updated 3 months ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆41Updated last year
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆97Updated 3 months ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆95Updated 2 months ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 6 months ago
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆32Updated 2 weeks ago
• saezlab / decoupler-py
  Python package to perform enrichment analysis from omics data.
  ☆194Updated this week
• theislab / prophet
  ☆31Updated last week
• pinellolab / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆60Updated 6 months ago
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆60Updated last year
• Genentech / sVAE
  ☆61Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 5 months ago