chris-mcginnis-ucsf / DoubletFinder

Related projects ⓘ

Alternatives and complementary repositories for DoubletFinder

• cole-trapnell-lab / monocle3
  ☆344Updated 2 weeks ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆387Updated last week
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆489Updated 2 months ago
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆395Updated 6 months ago
• Teichlab / cellphonedb
  ☆345Updated 2 years ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆570Updated this week
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆305Updated this week
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆293Updated last month
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆274Updated 4 years ago
• ncborcherding / scRepertoire
  A toolkit for single-cell immune profiling
  ☆310Updated this week
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆329Updated last month
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆437Updated 2 weeks ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆383Updated 8 months ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆309Updated this week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆391Updated last week
• IanevskiAleksandr / sc-type
  ☆240Updated last week
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆307Updated last year
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆344Updated this week
• 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
• cole-trapnell-lab / monocle-release
  ☆280Updated 2 years ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆360Updated last month
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆211Updated 8 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆259Updated 2 years ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆125Updated 2 years ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆459Updated 2 weeks ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆248Updated last month
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆289Updated last year
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆335Updated last month
• hbctraining / scRNA-seq_online
  ☆525Updated 3 weeks ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆421Updated 7 months ago