Alternatives and similar repositories for conos

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

• Oshlack / splatter
  Simple simulation of single-cell RNA sequencing data
  ☆228Updated this week
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• xuranw / MuSiC
  Multi-subject Single Cell Deconvolution
  ☆263Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆229Updated 2 years ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆211Updated 11 months ago
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆202Updated 2 years ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆169Updated 2 years ago
• RGLab / MAST
  Tools and methods for analysis of single cell assay data in R
  ☆243Updated last year
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆232Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆158Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated last year
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆281Updated last month
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆186Updated 3 years ago
• YosefLab / VISION
  Signature Analysis and Visualization for Single-Cell RNA-seq
  ☆168Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆178Updated 3 weeks ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆186Updated 8 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆201Updated 3 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆124Updated last year
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆154Updated 4 years ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆194Updated 2 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 7 months ago
• neurorestore / Libra
  ☆172Updated 2 months ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆186Updated 8 months ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆217Updated 3 weeks ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆199Updated last month
• Danko-Lab / BayesPrism
  A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression
  ☆197Updated last month