Alternatives and similar repositories for garnett:

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

• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆168Updated 2 weeks ago
• timoast / sinto
  Tools for single-cell data processing
  ☆123Updated 10 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆149Updated last year
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 4 years ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆136Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆172Updated 9 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆179Updated last month
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆161Updated last year
• quadbio / Pando
  Multiome GRN inference.
  ☆120Updated 11 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆160Updated last year
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆186Updated 3 weeks ago
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆101Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆147Updated 5 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆169Updated this week
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆114Updated 7 months ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated last week
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆268Updated 2 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆122Updated 5 months ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆106Updated 2 months ago
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆125Updated this week
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆176Updated 5 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆185Updated last month
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆185Updated last year
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆189Updated this week
• campbio / celda
  Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
  ☆147Updated last month
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆197Updated 8 months ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆120Updated 3 weeks ago