Alternatives and similar repositories for scRepertoire

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

• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆409Updated 4 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆442Updated 11 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆425Updated last month
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆354Updated last week
• IanevskiAleksandr / sc-type
  ☆285Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆306Updated last month
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆317Updated 5 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆307Updated 3 years ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆308Updated 3 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆401Updated last month
• Teichlab / cellphonedb
  ☆358Updated 4 years ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆246Updated last week
• cole-trapnell-lab / monocle3
  ☆430Updated last week
• immunomind / immunarch
  🧬 immunarch [R package] – Multi-Modal Immune Repertoire Analytics for Immunotherapy and Vaccine Design
  ☆335Updated 2 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆371Updated 5 months ago
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆323Updated last year
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆513Updated 2 weeks ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆517Updated 10 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆452Updated last year
• 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.
  ☆285Updated this week
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆603Updated 2 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆461Updated 2 weeks ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆337Updated this week
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆271Updated last year
• navinlabcode / copykat
  ☆263Updated 3 months ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆320Updated 2 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆199Updated 2 weeks ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆227Updated last month
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆216Updated last month
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆299Updated 2 years ago