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
• timoast / sinto
  Tools for single-cell data processing
  ☆124Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆164Updated 2 years ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆152Updated last year
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 4 years ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆151Updated last month
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆175Updated 10 months ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆128Updated 7 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆123Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated last month
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆204Updated 10 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆174Updated last month
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆163Updated last year
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆134Updated this week
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆196Updated 2 months ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆111Updated last month
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆140Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆147Updated 4 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆103Updated last year
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆148Updated last year
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆183Updated this week
• neurorestore / Augur
  Cell type prioritization in single-cell data
  ☆119Updated 7 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• satijalab / seurat-data
  Dataset distribution for Seurat
  ☆139Updated 3 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆116Updated 9 months ago
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆128Updated this week
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year