Alternatives and similar repositories for sceasy

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

• IanevskiAleksandr / sc-type
  ☆275Updated 10 months ago
• Teichlab / cellphonedb
  ☆358Updated 3 years ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆354Updated last month
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆430Updated 3 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆421Updated 3 weeks ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆318Updated 2 years ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆303Updated 5 years ago
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆394Updated 2 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆291Updated 2 years ago
• navinlabcode / copykat
  ☆251Updated last year
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆369Updated 3 weeks ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆493Updated 5 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆431Updated 7 months ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆234Updated 7 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆566Updated last month
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆456Updated 2 weeks ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆346Updated 9 months ago
• cole-trapnell-lab / monocle3
  ☆404Updated 2 months ago
• quadbio / scRNAseq_analysis_vignette
  Tutorial for scRNA-seq data analysis beginners using R
  ☆214Updated 6 months ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆466Updated last year
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆404Updated this week
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆394Updated 2 weeks ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆231Updated 2 years ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆378Updated 8 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆345Updated last week
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆433Updated 2 weeks ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆221Updated last week
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆291Updated 2 years ago
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆464Updated 6 months ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆292Updated last month