Alternatives and similar repositories for spade

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

• lmweber / cytometry-clustering-comparison
  R scripts to reproduce analyses in our paper comparing clustering methods for high-dimensional cytometry data
  ☆45Updated 8 years ago
• nolanlab / citrus
  Citrus Development Code
  ☆31Updated last year
• saeyslab / FlowCytometryScripts
  ☆24Updated 9 years ago
• sandhya212 / BISCUIT_SingleCell_IMM_ICML_2016
  R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
  ☆66Updated 7 years ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆47Updated last year
• czi-hca-comp-tools / easy-data
  easy access to benchmark datasets
  ☆50Updated 6 years ago
• RGLab / flowWorkspace
  flowWorkspace
  ☆45Updated 3 months ago
• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 7 years ago
• markrobinsonuzh / cytofWorkflow
  ☆16Updated last year
• nolanlab / cytofCore
  R package for working with CyToF data
  ☆26Updated 5 years ago
• slowkow / tftargets
  Human transcription factor target genes from 6 databases in convenient R format.
  ☆86Updated 6 years ago
• PMBio / scLVM
  scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…
  ☆106Updated 2 years ago
• JinmiaoChenLab / cytofkit
  cytofkit: an integrated flow/mass cytometry data analysis pipeline
  ☆58Updated 4 years ago
• leekgroup / recount
  R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/
  ☆41Updated 5 months ago
• stephaniehicks / bioconductorNotes
  My notes/usage examples for various Bioconductor packages
  ☆15Updated 8 years ago
• kkdey / CountClust
  A R package for Grade of Membership model and Visualization of counts data:
  ☆31Updated 4 years ago
• montilab / hypeR
  An R Package for Geneset Enrichment Workflows
  ☆76Updated last week
• govinda-kamath / clustering_on_transcript_compatibility_counts
  Clustering cells from single cell RNA seq assays
  ☆46Updated 6 years ago
• markrobinsonuzh / conquer
  consistent quantification of external RNA-seq data sets
  ☆58Updated last year
• kdkorthauer / scDD
  R package to identify genes with differential distributions in single-cell RNA-seq
  ☆33Updated 3 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• lmweber / diffcyt
  R package for differential discovery analyses in high-dimensional cytometry data
  ☆20Updated 3 months ago
• YosefLab / scone
  ☆54Updated 3 months ago
• compbiomed / celda
  Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
  ☆48Updated 6 years ago
• mojaveazure / loomR
  An R-based interface for loom files
  ☆66Updated 4 years ago
• KlugerLab / t-SNE-Heatmaps
  Beta version of 1D t-SNE heatmaps to visualize expression patterns of hundreds of genes simultaneously in scRNA-seq
  ☆48Updated 6 years ago
• dgrun / RaceID
  Algorithm for the inference of cell types from single-cell RNA-seq data.
  ☆44Updated 9 years ago
• LTLA / SingleCellThoughts
  Assorted thoughts, explanations and justifications for code in the scran package and the simpleSingleCell workflow.
  ☆44Updated 4 years ago
• yuchaojiang / Canopy
  Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.
  ☆69Updated 3 years ago
• JinmiaoChenLab / Rphenograph
  Rphenograph: R implementation of the PhenoGraph algorithm
  ☆48Updated 4 years ago