MarioniLab / miloR

Related projects ⓘ

Alternatives and complementary repositories for miloR

• ncborcherding / scRepertoire
  A toolkit for single-cell immune profiling
  ☆310Updated last week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆390Updated last week
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆211Updated 8 months ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆240Updated 11 months ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆252Updated this week
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆270Updated 6 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆297Updated 4 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆329Updated last month
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆305Updated 3 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆489Updated 2 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆259Updated 2 years 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.
  ☆216Updated this week
• IanevskiAleksandr / sc-type
  ☆239Updated last week
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆382Updated 8 months ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆415Updated 6 months ago
• navinlabcode / copykat
  ☆210Updated 4 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆177Updated this week
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆182Updated 3 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆246Updated last month
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆274Updated 4 years ago
• satijalab / seurat-data
  Dataset distribution for Seurat
  ☆129Updated last year
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆387Updated last week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆218Updated last year
• rcastelo / GSVA
  Gene set variation analysis
  ☆200Updated this week
• RGLab / MAST
  Tools and methods for analysis of single cell assay data in R
  ☆228Updated last year
• cole-trapnell-lab / monocle3
  ☆342Updated last week
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆164Updated 3 weeks ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆292Updated last month
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆166Updated last month
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated last year