Alternatives and similar repositories for dandelion

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

• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆153Updated last year
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆117Updated 2 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆126Updated 8 months ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆93Updated 4 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆152Updated 3 years ago
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆103Updated 2 months ago
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆161Updated 2 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆105Updated 11 months ago
• YosefLab / popV
  ☆87Updated this week
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆114Updated last year
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆92Updated 2 years ago
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆143Updated 3 weeks ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆78Updated 3 weeks ago
• pachterlab / kb_python
  A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
  ☆182Updated last week
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆80Updated 11 months ago
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆75Updated 7 months ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆103Updated 3 weeks ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆113Updated 2 years ago
• calico / solo
  software to detect doublets
  ☆95Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆180Updated last year
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆88Updated last week
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆152Updated 5 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆185Updated 2 years ago
• czbiohub-sf / tabula-muris-senis
  Tabula Muris Senis
  ☆107Updated 2 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆191Updated 2 months ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆141Updated last year