Alternatives and similar repositories for singleCellNet

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

• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆152Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆179Updated last year
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆113Updated last month
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆80Updated 11 months ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆140Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated last year
• cole-trapnell-lab / garnett
  Automated cell type classification
  ☆114Updated 11 months ago
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆209Updated 2 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆72Updated 4 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 5 years ago
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆160Updated last month
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆111Updated 2 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆112Updated last year
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆143Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆98Updated 4 years ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆184Updated 2 years ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆93Updated 4 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆131Updated last year
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆119Updated last month
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆105Updated 2 years ago
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆83Updated 5 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆226Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆102Updated last week
• wguo-research / scCancer
  A package for automated processing of single cell RNA-seq data in cancer
  ☆114Updated 3 months ago
• rajewsky-lab / novosparc
  ☆131Updated 2 years ago
• cellgeni / batchbench
  ☆46Updated 3 years ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago