Alternatives and similar repositories for garnett:

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

• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆173Updated 9 months ago
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 4 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆124Updated 11 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆152Updated last year
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆103Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆163Updated 2 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated 2 weeks ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆191Updated last month
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆149Updated 2 weeks ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆187Updated 2 months ago
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆229Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆173Updated 2 weeks ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆145Updated 5 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆192Updated 2 weeks ago
• quadbio / Pando
  Multiome GRN inference.
  ☆121Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆144Updated 3 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆144Updated last year
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆104Updated 2 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆125Updated 6 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆273Updated 2 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆110Updated last week
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆174Updated 2 weeks ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆115Updated 7 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆201Updated 8 months ago
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆163Updated last year
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆103Updated last year