Alternatives and similar repositories for chooseR:

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

• atakanekiz / CIPR-Package
  Cluster Identity Predictor (R package implementation)
  ☆20Updated 3 years ago
• arc85 / celltalker
  Inference of cell-cell communication from single-cell RNAseq data
  ☆48Updated 2 weeks ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆31Updated 10 months ago
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆73Updated 4 years ago
• Coolgenome / iTALK
  ☆60Updated 5 years ago
• ZJUFanLab / CellTalkDB
  A manually curated database of literature-supported ligand-receptor interactions in human and mouse
  ☆30Updated 10 months ago
• liziyie / scDVA
  An R shiny based tool used for single cell RNA-seq data visualization and analysis.
  ☆33Updated 4 years ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆73Updated 8 months ago
• smorabit / hdWGCNA_paper
  Code used to run the data analysis in the hdWGCNA manuscript (Morabito et al 2022)
  ☆16Updated last year
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆36Updated 4 years ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆64Updated 6 months ago
• favilaco / deconv_matching_bulk_scnRNA
  Repository for "Effective methods for bulk RNA-seq deconvolution using scRNA-seq and snRNA-seq derived transcriptomes"
  ☆15Updated last year
• arc85 / singleseqgset
  Gene set enrichment analysis for single-cell RNAseq data
  ☆27Updated 2 years ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆31Updated 3 years ago
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆25Updated 3 years ago
• omnideconv / spacedeconv
  A unified interface to spatial transcriptomics deconvolution tools
  ☆41Updated 3 weeks ago
• Single-Cell-Genomics-Group-CNAG-CRG / ST-analysis
  General notes and resources on how to analyze Spatial Transcriptomics data
  ☆12Updated last year
• alserglab / mascarade
  Generate masks for scRNA-seq clusters on t-SNE or UMAP plots
  ☆26Updated this week
• DavisLaboratory / standR
  Spatial transcriptomics analyses and decoding in R
  ☆21Updated 2 months ago
• phipsonlab / speckle
  R package for analysing single cell data
  ☆55Updated 2 years ago
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆37Updated 3 years ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 5 months ago
• Oshlack / speckle
  R package for specialised analysis of single cell data
  ☆38Updated 2 years ago
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆51Updated last year
• guokai8 / scGSVA
  scGSVA: Perform GSVA for single cell RNA seq
  ☆56Updated 5 months ago
• haniffalab / scRNA-seq_analysis
  Single cell RNA-seq analysis bundle
  ☆34Updated 5 years ago
• chloelulu / scMayoMap
  ☆21Updated last year
• phillipnicol / scDist
  Robust identification of perturbed cell types in single-cell RNA-seq data
  ☆31Updated 5 months ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆59Updated 2 years ago
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆44Updated last year