Alternatives and similar repositories for GLUE:

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

• theislab / scib
  Benchmarking analysis of data integration tools
  ☆334Updated last month
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆352Updated last week
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆335Updated 2 months ago
• theislab / single-cell-transformer-papers
  ☆300Updated 2 weeks ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆335Updated last month
• OmicsML / awesome-foundation-model-single-cell-papers
  ☆236Updated last month
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆202Updated this week
• broadinstitute / Tangram
  Spatial alignment of single cell transcriptomic data.
  ☆277Updated 8 months ago
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆172Updated 2 weeks ago
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆364Updated last month
• snap-stanford / GEARS
  GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
  ☆230Updated last month
• aristoteleo / dynamo-release
  Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …
  ☆439Updated 2 months ago
• openproblems-bio / openproblems
  Formalizing and benchmarking open problems in single-cell genomics
  ☆328Updated 3 weeks ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆409Updated last year
• BayraktarLab / cell2location
  Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
  ☆339Updated 2 weeks ago
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆341Updated 9 months ago
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆137Updated last year
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆311Updated last year
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆205Updated last month
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆312Updated this week
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆185Updated this week
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆513Updated this week
• TencentAILabHealthcare / scBERT
  ☆290Updated last year
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆247Updated 2 months ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆180Updated 4 years ago
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆416Updated this week
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆430Updated last week
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆477Updated 10 months ago
• BiomedicalMachineLearning / stLearn
  A novel machine learning pipeline to analyse spatial transcriptomics data
  ☆208Updated 9 months ago
• Teichlab / cellphonedb
  ☆353Updated 3 years ago