Alternatives and similar repositories for HCL

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

• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆38Updated 4 years ago
• cssmillie / ulcerative_colitis
  ☆63Updated 5 years ago
• Coolgenome / iTALK
  ☆64Updated 6 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆99Updated last year
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆112Updated 8 months ago
• data2intelligence / CytoSig
  ☆59Updated last year
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆84Updated 2 years ago
• bei-lab / scRNA-AHCA
  Single-cell transcriptome profiling of an adult human cell atlas of 15 major organs
  ☆39Updated last year
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆76Updated last year
• SGI-LungCancer / SingleCell
  Code repository for single cell RNA-seq
  ☆39Updated 5 years ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆80Updated 4 months ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 3 years ago
• MSZaki / Aging-and-CR-rat-atlas
  Single cell RNA analysis about paper “Caloric restriction reprograms the single-cell transcriptional landscape of Rattus norvegicus aging…
  ☆29Updated 5 years ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆111Updated 2 years ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated 2 years ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆29Updated 3 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆72Updated 4 years ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆85Updated 11 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• haniffalab / scRNA-seq_analysis
  Single cell RNA-seq analysis bundle
  ☆37Updated 6 years ago
• cartal / HCA_Heart
  This is the official repository for the Human Cell Atlas Heart project.
  ☆32Updated 5 years ago
• califano-lab / PISCES
  R package for Protein activity analysis of single-cell RNAseq.
  ☆85Updated 3 years ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆95Updated 5 years ago
• JiaqiLiZju / CelltypeEvolution
  Code used in article: Tracing cell-type evolution by cross-species comparison of cell atlases
  ☆18Updated 5 years ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆32Updated 4 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• genecell / COSG
  Accurate and fast cell marker gene identification with COSG
  ☆53Updated this week
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆68Updated last year