Alternatives and similar repositories for scvelo

Users that are interested in scvelo 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…
  ☆520Updated 2 weeks ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆433Updated last year
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆338Updated 11 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆550Updated last week
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆347Updated 4 months ago
• Teichlab / cellphonedb
  ☆356Updated 3 years ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆423Updated 4 months ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆317Updated 2 years ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆366Updated 6 months ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆471Updated last month
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆385Updated 2 weeks ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆460Updated last year
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆409Updated last month
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆427Updated 3 weeks ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆480Updated 3 months ago
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆379Updated 2 months ago
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆426Updated 7 months ago
• brianhie / scanorama
  Panoramic stitching of single cell data
  ☆285Updated last year
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆374Updated last month
• cole-trapnell-lab / monocle3
  ☆391Updated last week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆417Updated 2 months ago
• IanevskiAleksandr / sc-type
  ☆269Updated 8 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆341Updated this week
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆218Updated this week
• theislab / cellrank
  CellRank: dynamics from multi-view single-cell data
  ☆390Updated 3 months ago
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆580Updated 8 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆313Updated last week
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆420Updated 5 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆497Updated last week
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆363Updated 6 months ago