Alternatives and similar repositories for AutoGeneS:

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

• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆68Updated 3 weeks ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆64Updated 8 months ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆69Updated 6 months ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆72Updated 5 months ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆93Updated last year
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆79Updated last year
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆79Updated 6 months ago
• cellgeni / batchbench
  ☆46Updated 2 years ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆70Updated 9 months ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆113Updated 5 months ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆59Updated last month
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆103Updated 2 weeks ago
• GfellerLab / EPIC
  Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
  ☆79Updated last year
• omnideconv / omnideconv
  Unified access to several second-generation deconvolution methods
  ☆65Updated this week
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• powellgenomicslab / scPred
  scPred package for cell type prediction from scRNA-seq data
  ☆83Updated last year
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆93Updated 4 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆81Updated 5 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆143Updated 11 months ago
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆43Updated last month
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆99Updated 2 years ago
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆57Updated 2 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆99Updated last year
• niaid / dsb
  Normalize CITEseq Data
  ☆65Updated 8 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆142Updated 11 months ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆62Updated 2 years ago
• krasnowlab / HLCA
  ☆61Updated 3 years ago
• kharchenkolab / scITD
  Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
  ☆55Updated 10 months ago
• immunogenomics / SCENT
  Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA
  ☆71Updated 5 months ago