Alternatives and similar repositories for spade:

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

• nolanlab / citrus
  Citrus Development Code
  ☆31Updated last year
• lmweber / cytometry-clustering-comparison
  R scripts to reproduce analyses in our paper comparing clustering methods for high-dimensional cytometry data
  ☆45Updated 8 years 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  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.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
• sandhya212 / BISCUIT_SingleCell_IMM_ICML_2016
  R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
  ☆66Updated 7 years ago
• czi-hca-comp-tools / easy-data
  easy access to benchmark datasets
  ☆50Updated 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…
  ☆105Updated 2 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
• kkdey / CountClust
  A R package for Grade of Membership model and Visualization of counts data:
  ☆31Updated 4 years ago
• saeyslab / FlowCytometryScripts
  ☆24Updated 9 years ago
• mxxdxxx / FirebrowseR
  An R client for broads firehose pipeline, providing TCGA data sets
  ☆60Updated 5 years ago
• drisso / zinbwave
  Clone of the Bioconductor repository for the zinbwave package, see https://bioconductor.org/packages/zinbwave
  ☆43Updated last year
• nolanlab / cytofCore
  R package for working with CyToF data
  ☆26Updated 4 years ago
• leekgroup / recount
  R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/
  ☆41Updated 4 months ago
• compbiomed / celda
  Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
  ☆48Updated 5 years ago
• theislab / graph_abstraction
  Generate cellular maps of differentiation manifolds with complex topologies.
  ☆26Updated 6 years ago
• govinda-kamath / clustering_on_transcript_compatibility_counts
  Clustering cells from single cell RNA seq assays
  ☆46Updated 6 years ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆47Updated last year
• slowkow / tftargets
  Human transcription factor target genes from 6 databases in convenient R format.
  ☆86Updated 6 years ago
• YosefLab / scone
  ☆53Updated last month
• RGLab / flowWorkspace
  flowWorkspace
  ☆45Updated last month
• srp33 / TCGA_RNASeq_Clinical
  ☆61Updated 4 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• waldronlab / curatedTCGAData
  Curated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects
  ☆44Updated 5 months ago
• ManuSetty / wishbone
  Wishbone is an algorithm to align cells along developmental trajectories with branches
  ☆42Updated 5 years ago
• nolanlab / vortex
  VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:
  ☆34Updated 2 years ago
• MarioniLab / Deconvolution2016
  Code and manuscript files for Aaron and Karsten's deconvolution paper.
  ☆16Updated 6 years ago
• stephaniehicks / bioconductorNotes
  My notes/usage examples for various Bioconductor packages
  ☆15Updated 8 years ago
• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆106Updated last year
• catavallejos / BASiCS
  BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/pa…
  ☆83Updated 10 months ago