Alternatives and similar repositories for Beeline

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

• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆163Updated 3 years ago
• HantaoShu / DeepSEM
  ☆85Updated 2 years ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆148Updated 7 months ago
• OSU-BMBL / deepmaps
  Single-cell biological network inference using a heterogeneous graph transformer
  ☆76Updated 7 months ago
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆63Updated last year
• scverse / pertpy
  Single-cell perturbation analysis
  ☆203Updated this week
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆103Updated 2 years ago
• theislab / paga
  Mapping out the coarse-grained connectivity structures of complex manifolds.
  ☆227Updated 5 years ago
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆111Updated last year
• Teichlab / bbknn
  Batch balanced KNN
  ☆171Updated last year
• slowkow / harmonypy
  🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
  ☆231Updated last year
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆218Updated 3 months ago
• snap-stanford / SATURN
  ☆139Updated last year
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆145Updated last year
• theislab / moscot
  Multi-omic single-cell optimal transport tools
  ☆174Updated last week
• gao-lab / GLUE
  Graph-linked unified embedding for single-cell multi-omics data integration
  ☆428Updated last month
• snap-stanford / mars
  Discovering novel cell types across heterogenous single-cell experiments
  ☆123Updated 2 years ago
• nitzanlab / biolord
  ☆84Updated last year
• broadinstitute / wot
  A software package for analyzing snapshots of developmental processes
  ☆146Updated 3 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• cantinilab / scPRINT
  single cell foundation model
  ☆106Updated last week
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆141Updated 2 years ago
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆225Updated this week
• const-ae / linear_perturbation_prediction-Paper
  ☆54Updated 2 months ago
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆105Updated 2 years ago
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆48Updated 2 months ago
• imsb-uke / scGAN
  Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks
  ☆84Updated last year
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆103Updated this week
• klarman-cell-observatory / scPhere
  ☆102Updated 2 years ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆72Updated this week