Alternatives and similar repositories for OrchestratingSingleCellAnalysis

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

• wjawaid / enrichR
  An R interface to enrichR
  ☆92Updated 7 months ago
• alanocallaghan / scater
  Clone of the Bioconductor repository for the scater package.
  ☆97Updated 6 months ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆124Updated 5 months ago
• drisso / SingleCellExperiment
  Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCe…
  ☆74Updated 2 months 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 2 years ago
• rezakj / iCellR
  Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRN…
  ☆123Updated last year
• cmap / cmapR
  Tools for manipulating annotated data matrices
  ☆92Updated 3 years ago
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 9 months ago
• kevinblighe / scDataviz
  scDataviz: single cell dataviz and downstream analyses
  ☆63Updated 3 years ago
• MangiolaLaboratory / sccomp
  Mixed-effect model to test differences in cell type proportions from single-cell data, in R
  ☆111Updated 3 weeks ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆105Updated 2 years ago
• GfellerLab / EPIC
  Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
  ☆84Updated 2 years ago
• waldronlab / HGNChelper
  Identify and correct invalid gene symbols
  ☆59Updated 10 months ago
• jokergoo / simplifyEnrichment
  Simplify functional enrichment results
  ☆117Updated last year
• cole-trapnell-lab / garnett
  Automated cell type classification
  ☆112Updated 8 months ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆96Updated 11 months ago
• drisso / bioc2016singlecell
  Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor
  ☆79Updated 8 years ago
• BaderLab / Cytoscape_workflows
  collection of notebooks with different cytoscape workflows
  ☆50Updated 2 years ago
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 5 years ago
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆43Updated last year
• cozygene / bisque
  An R toolkit for estimation of cell composition from bulk expression data
  ☆78Updated 3 months ago
• elimereu / matchSCore2
  ☆55Updated 4 years ago
• kevinrue / velociraptor
  Toolkit for Single-Cell Velocity
  ☆59Updated 2 months ago
• reimandlab / ActivePathways
  Integrative pathway enrichment analysis of multivariate omics data
  ☆114Updated 2 months ago
• DavisLaboratory / singscore
  An R/Bioconductor package that implements a single-sample molecular phenotyping approach
  ☆45Updated 9 months ago
• OSCA-source / OSCA
  The package wrapping the book, for deployment via the Bioconductor build system.
  ☆90Updated 10 months ago
• kordastilab / ImmunoCluster
  ☆27Updated 4 years ago
• ucdavis-bioinformatics-training / 2017_2018-single-cell-RNA-sequencing-Workshop-UCD_UCB_UCSF
  2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF
  ☆36Updated 7 years ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆58Updated 2 years ago