Alternatives and similar repositories for garnett:

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

• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆140Updated 10 months ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆134Updated last year
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆158Updated this week
• quadbio / Pando
  Multiome GRN inference.
  ☆115Updated 9 months ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆143Updated 2 months ago
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆111Updated 4 years ago
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆156Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆122Updated 8 months ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆181Updated 2 weeks ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆155Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆162Updated 6 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆157Updated last month
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆263Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆157Updated last year
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆182Updated 3 weeks ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆119Updated 2 months ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆116Updated 5 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆177Updated 3 weeks ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆172Updated this week
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆177Updated 3 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆188Updated 5 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆142Updated 11 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆87Updated 3 years ago
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆98Updated 11 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆117Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆113Updated last month
• neurorestore / Libra
  ☆159Updated 5 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆133Updated 2 weeks ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated last year