Alternatives and similar repositories for VISION

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

• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆165Updated 2 years ago
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆231Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆154Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆176Updated this week
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆125Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated 11 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆147Updated 5 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆208Updated 10 months ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆131Updated last week
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 6 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆148Updated last year
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆116Updated 9 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆124Updated last year
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆136Updated 10 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆203Updated last year
• RGLab / MAST
  Tools and methods for analysis of single cell assay data in R
  ☆241Updated last year
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆158Updated 6 months ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆110Updated last month
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆196Updated 3 months ago
• campbio / celda
  Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
  ☆148Updated 4 months ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆194Updated last month
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆124Updated last week
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆198Updated 3 weeks ago