Alternatives and similar repositories for cellxgene-gateway

Users that are interested in cellxgene-gateway are comparing it to the libraries listed below

• lilab-bcb / harmony-pytorch
  ☆55Updated 3 months ago
• calico / solo
  software to detect doublets
  ☆94Updated 8 months ago
• parashardhapola / scarf
  Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…
  ☆101Updated 4 months ago
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆157Updated last month
• theislab / sfaira
  data and model repository for single-cell data
  ☆135Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆105Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆90Updated last week
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆109Updated this week
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆138Updated this week
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆63Updated this week
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆89Updated 10 months ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆121Updated last week
• AllonKleinLab / SPRING_dev
  ☆70Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 6 months ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆86Updated 4 years ago
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆34Updated 5 months ago
• 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
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• velocyto-team / velocyto-notebooks
  ☆55Updated 7 years ago
• JonathanShor / DoubletDetection
  Doublet detection in single-cell RNA-seq data.
  ☆92Updated 6 months ago
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆65Updated 2 years ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆145Updated 8 months ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 4 months ago
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆88Updated 6 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 4 months ago
• jmbreda / Sanity
  Filtering of Poison noise on a single-cell RNA-seq UMI count matrix
  ☆78Updated 4 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 6 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆76Updated 7 months ago
• rajewsky-lab / spacemake
  ☆44Updated 2 weeks ago