Alternatives and similar repositories for seurat-wrappers

Users that are interested in seurat-wrappers are comparing it to the libraries listed below

• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆468Updated 2 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆421Updated 3 months ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆614Updated 4 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆374Updated 4 months ago
• cole-trapnell-lab / monocle3
  ☆386Updated this week
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆540Updated this week
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆333Updated this week
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆297Updated 4 years ago
• satijalab / seurat-data
  Dataset distribution for Seurat
  ☆139Updated 2 months ago
• samuel-marsh / scCustomize
  R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆258Updated last week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆413Updated 3 weeks ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆224Updated last month
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated last week
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• IanevskiAleksandr / sc-type
  ☆265Updated 6 months ago
• navinlabcode / copykat
  ☆235Updated 11 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆425Updated last year
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆324Updated this week
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆488Updated 3 weeks ago
• Teichlab / cellphonedb
  ☆355Updated 3 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆500Updated last year
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆286Updated 2 weeks ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆409Updated 2 months ago
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆379Updated 6 months ago
• cole-trapnell-lab / monocle-release
  ☆287Updated 2 years ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆318Updated 2 years ago
• quadbio / scRNAseq_analysis_vignette
  Tutorial for scRNA-seq data analysis beginners using R
  ☆199Updated 2 months ago
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆293Updated last year
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆404Updated last month