Alternatives and similar repositories for dorothea

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

• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆89Updated 3 weeks ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆74Updated 5 months ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆134Updated last month
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆150Updated last month
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆107Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆125Updated last year
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆140Updated last year
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆202Updated 2 years ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆117Updated this week
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆103Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆89Updated last year
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 2 years ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆109Updated 5 months ago
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆90Updated 2 years ago
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆114Updated 8 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆169Updated 2 years ago
• czbiohub-sf / tabula-muris-senis
  Tabula Muris Senis
  ☆103Updated 2 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆95Updated 2 years ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 2 months ago
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆88Updated 5 months ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆91Updated 5 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆96Updated 4 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆132Updated 8 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆158Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 7 months ago