Alternatives and similar repositories for vitessceR

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

• greenelab / miQC
  Flexible, probablistic metrics for quality control of scRNA-seq data
  ☆20Updated 2 years ago
• korsunskylab / rcna
  R implementation of the Reshef and Rumker CNA method (https://github.com/immunogenomics/cna)
  ☆15Updated last year
• zdebruine / singlet
  Single-cell analysis with non-negative matrix factorization
  ☆45Updated 2 weeks ago
• saezlab / MOFAcell
  Code used for muti cellular factor analysis
  ☆14Updated last year
• pachterlab / SpatialFeatureExperiment
  Extension of SpatialExperiment with sf
  ☆55Updated last month
• Vivianstats / scLink
  Inferring gene co-expression networks from single cell gene expression data
  ☆26Updated 3 years ago
• const-ae / transformGamPoi
  Variance stabilizing transformation for Gamma Poisson distributed data
  ☆22Updated 2 years ago
• shenorrLabTRDF / cellAlign
  ☆41Updated 4 years ago
• MSingerLab / COMETSC
  COMET Single-Cell Marker Detection tool
  ☆31Updated 3 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated last week
• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated this week
• dynverse / anndata
  Annotated multivariate observation data in R
  ☆50Updated 2 months ago
• kevinrue / velociraptor
  Toolkit for Single-Cell Velocity
  ☆58Updated last month
• drighelli / SpatialExperiment
  ☆66Updated 2 months ago
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆51Updated last year
• oganm / homologene
  An r package that works as a wrapper to homologene
  ☆46Updated last year
• Sarah145 / CCPlotR
  An R package for visualising cell-cell interactions
  ☆44Updated 11 months ago
• Teichlab / TissueTag
  Python package to interactively annotate histological images within a jupyter notebook
  ☆16Updated 9 months ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆41Updated 3 years ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆35Updated 2 months ago
• bioinfoDZ / scDAPP
  A end-to-end scRNA-seq analysis pipeline for cross-group comparison
  ☆18Updated 2 months ago
• mojaveazure / loomR
  An R-based interface for loom files
  ☆66Updated 5 years ago
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆39Updated 3 years ago
• wmacnair / SampleQC
  Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data
  ☆37Updated 2 years ago
• satijalab / azimuth-references
  ☆24Updated 2 months ago
• Simon-Leonard / FlexDotPlot
  R package for Flexible dot plots
  ☆29Updated 3 years ago
• immunogenomics / singlecellmethods
  Collection of useful methods for single cell analysis
  ☆14Updated 11 months ago
• bioturing / signac
  An analytics package for single cell data
  ☆22Updated 3 years ago
• scverse / anndataR
  AnnData interoperability in R
  ☆87Updated this week
• GabrielHoffman / dreamlet
  Perform differential expression analysis on multi-sample single cell datasets using linear mixed models
  ☆25Updated 3 months ago