Alternatives and similar repositories for cellxgene:

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

• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆472Updated 10 months ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆313Updated this week
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆548Updated 3 months ago
• hemberg-lab / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆674Updated 2 years ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆382Updated last week
• Teichlab / cellphonedb
  ☆353Updated 3 years ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆440Updated 2 weeks ago
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆670Updated 2 months ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆595Updated 3 weeks ago
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆427Updated 2 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆349Updated last month
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆321Updated 3 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆513Updated this week
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆306Updated 7 months ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆334Updated 2 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆333Updated last month
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆399Updated this week
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆389Updated 2 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆326Updated last week
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆415Updated this week
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆451Updated 2 months ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆435Updated 10 months ago
• hbctraining / scRNA-seq_online
  ☆562Updated this week
• zqfang / GSEApy
  Gene Set Enrichment Analysis in Python
  ☆596Updated last week
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆364Updated last month
• hbctraining / scRNA-seq
  ☆550Updated 3 years ago
• cole-trapnell-lab / monocle3
  ☆364Updated last month
• spacetx / starfish
  starfish: unified pipelines for image-based transcriptomics
  ☆231Updated this week
• IanevskiAleksandr / sc-type
  ☆253Updated 3 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆406Updated 11 months ago