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
  ☆161Updated 3 years ago
• HantaoShu / DeepSEM
  ☆85Updated 2 years ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆138Updated 6 months ago
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆109Updated last year
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated 2 years ago
• gao-lab / GLUE
  Graph-linked unified embedding for single-cell multi-omics data integration
  ☆421Updated 3 weeks ago
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆63Updated last year
• scverse / pertpy
  Single-cell perturbation analysis
  ☆196Updated last week
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆373Updated 7 months ago
• theislab / paga
  Mapping out the coarse-grained connectivity structures of complex manifolds.
  ☆224Updated 5 years ago
• klarman-cell-observatory / scPhere
  ☆101Updated 2 years ago
• openproblems-bio / openproblems
  Formalizing and benchmarking open problems in single-cell genomics
  ☆384Updated last week
• slowkow / harmonypy
  🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
  ☆224Updated last year
• const-ae / linear_perturbation_prediction-Paper
  ☆47Updated last month
• theislab / dca
  Deep count autoencoder for denoising scRNA-seq data
  ☆261Updated last year
• vahuynh / GENIE3
  Machine learning-based approach for the inference of gene regulatory networks from expression data.
  ☆87Updated 3 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆66Updated 2 years ago
• imsb-uke / scGAN
  Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks
  ☆84Updated last year
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆381Updated last month
• HelloWorldLTY / scEval
  Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.
  ☆72Updated 2 months ago
• snap-stanford / SATURN
  ☆135Updated last year
• Murali-group / BoolODE
  Git Repo for simulating Boolean Models
  ☆35Updated last year
• bunnech / cellot
  Learning Single-Cell Perturbation Responses using Neural Optimal Transport
  ☆143Updated 9 months ago
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆173Updated last year
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆213Updated 2 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆137Updated 2 years ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆169Updated last year
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆103Updated 2 years ago
• theislab / scgen
  Single cell perturbation prediction
  ☆315Updated 8 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆68Updated last week