Alternatives and similar repositories for infercnv

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

• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆480Updated 3 months ago
• cole-trapnell-lab / monocle3
  ☆391Updated last week
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆423Updated 4 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆550Updated last week
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆522Updated last year
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆497Updated last week
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆580Updated 8 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆377Updated 5 months ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆340Updated 7 months ago
• Teichlab / cellphonedb
  ☆356Updated 3 years ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆460Updated last year
• hbctraining / Intro-to-scRNAseq
  ☆607Updated 2 months ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆429Updated last week
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆471Updated last month
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆341Updated this week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆417Updated 2 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆299Updated 4 years ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆420Updated this week
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆327Updated this week
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆709Updated last week
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆424Updated 11 months ago
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆309Updated 2 years ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆420Updated 5 months ago
• hemberg-lab / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆676Updated 3 years ago
• hbctraining / scRNA-seq
  ☆571Updated 4 years ago
• cole-trapnell-lab / monocle-release
  ☆290Updated 2 years ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆433Updated last year
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆317Updated 2 years ago
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆520Updated 2 weeks ago
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆401Updated last month