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
  ☆97Updated 2 weeks ago
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆94Updated 10 months ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆72Updated last year
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆124Updated 2 months ago
• ludvigla / semla
  ☆94Updated 2 weeks ago
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆52Updated last year
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 9 months ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆89Updated 3 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…
  ☆77Updated this week
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆90Updated last month
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆87Updated 4 months ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆79Updated last year
• dynverse / anndata
  Annotated multivariate observation data in R
  ☆50Updated 4 months ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆108Updated 2 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆85Updated last year
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆54Updated last year
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆79Updated 6 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆110Updated 2 years ago
• jmbreda / Sanity
  Filtering of Poison noise on a single-cell RNA-seq UMI count matrix
  ☆78Updated 5 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆187Updated last month
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆104Updated last year
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated 5 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆65Updated last month
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆38Updated 3 months ago
• omnideconv / omnideconv
  Unified access to several second-generation deconvolution methods
  ☆78Updated last month
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆119Updated last year
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆124Updated 5 months ago
• KlugerLab / DAseq
  ☆41Updated 4 years ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆117Updated 5 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆176Updated 2 years ago