Alternatives and similar repositories for hdWGCNA:

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

• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆351Updated 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.
  ☆237Updated last week
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆263Updated 2 years ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆399Updated 2 weeks ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆319Updated 2 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆395Updated last week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆182Updated 3 weeks ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆510Updated 4 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆281Updated 4 years ago
• IanevskiAleksandr / sc-type
  ☆250Updated 2 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆401Updated 11 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆323Updated this week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆221Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆262Updated 2 months ago
• navinlabcode / copykat
  ☆220Updated 7 months ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆172Updated 2 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆258Updated 3 months ago
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆433Updated 8 months ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆336Updated last month
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆305Updated 6 months ago
• cole-trapnell-lab / monocle3
  ☆360Updated 3 weeks ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆435Updated 8 months ago
• satijalab / seurat-data
  Dataset distribution for Seurat
  ☆134Updated last year
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆217Updated last month
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated last year
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆262Updated 3 months ago
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆345Updated last week
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆244Updated this week
• Teichlab / cellphonedb
  ☆350Updated 3 years ago
• pwwang / scplotter
  scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy…
  ☆135Updated 2 weeks ago