Alternatives and similar repositories for scarf

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

• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆138Updated this week
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆105Updated last year
• rajewsky-lab / novosparc
  ☆131Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆121Updated last month
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated 2 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆89Updated 9 months ago
• rajewsky-lab / spacemake
  ☆44Updated 2 weeks ago
• JonathanShor / DoubletDetection
  Doublet detection in single-cell RNA-seq data.
  ☆92Updated 6 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆115Updated 3 months ago
• calico / solo
  software to detect doublets
  ☆93Updated 7 months ago
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆112Updated 9 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆126Updated last year
• lilab-bcb / harmony-pytorch
  ☆55Updated 3 months ago
• JCVenterInstitute / NSForest
  A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA seq…
  ☆64Updated last week
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 4 months ago
• jmbreda / Sanity
  Filtering of Poison noise on a single-cell RNA-seq UMI count matrix
  ☆78Updated 3 months ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆86Updated 4 years ago
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆157Updated 3 weeks ago
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆65Updated last year
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆65Updated 2 years ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 6 months ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆75Updated 7 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• AllonKleinLab / SPRING_dev
  ☆70Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆91Updated this week
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆73Updated 3 weeks ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆110Updated 10 months ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 10 months ago
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆79Updated 5 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆63Updated last month