Alternatives and similar repositories for VISION

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

• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆169Updated 2 years ago
• 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
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆158Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆211Updated 11 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆148Updated 6 months ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆127Updated this week
• neurorestore / Augur
  Cell type prioritization in single-cell data
  ☆121Updated 8 months ago
• RGLab / MAST
  Tools and methods for analysis of single cell assay data in R
  ☆243Updated last year
• quadbio / Pando
  Multiome GRN inference.
  ☆124Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆178Updated 3 weeks ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆134Updated last month
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆232Updated last year
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆171Updated this week
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆199Updated last month
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆201Updated 3 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆213Updated last year
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆116Updated 10 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
  ☆122Updated 2 years ago
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆202Updated 2 years ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆109Updated 5 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆229Updated 2 years ago
• cole-trapnell-lab / garnett
  Automated cell type classification
  ☆111Updated 6 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• 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
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆154Updated 4 years ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 7 months ago