Alternatives and similar repositories for anndataR

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

• pachterlab / voyager
  From geospatial to spatial -omics
  ☆99Updated this week
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆97Updated last year
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆52Updated last year
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆90Updated 3 months ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆75Updated 3 weeks ago
• ludvigla / semla
  ☆95Updated 2 months ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆131Updated 4 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆112Updated last month
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 11 months ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆91Updated 6 months ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆90Updated 5 months ago
• Nanostring-Biostats / CosMx-Analysis-Scratch-Space
  This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…
  ☆86Updated this week
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆81Updated 8 months ago
• dynverse / anndata
  Annotated multivariate observation data in R
  ☆51Updated 6 months ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆81Updated last year
• theislab / destiny
  R package for single cell and other data analysis using diffusion maps
  ☆91Updated 3 weeks ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆33Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆193Updated last week
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆119Updated last year
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆98Updated 4 years ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆111Updated 2 years ago
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆81Updated 3 years ago
• quadbio / Pando
  Multiome GRN inference.
  ☆131Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆93Updated this week
• alserglab / mascarade
  Generate masks for scRNA-seq clusters on t-SNE or UMAP plots
  ☆38Updated last week
• KlugerLab / DAseq
  ☆41Updated 4 years ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆123Updated 7 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆64Updated 3 years ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆67Updated last month