Alternatives and similar repositories for HumanColonCancer_VisiumHD

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

• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆138Updated 11 months ago
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆88Updated 3 years ago
• navinlabcode / CellTrek
  ☆129Updated 3 years ago
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆132Updated last year
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆135Updated 3 months ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆85Updated 2 years ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆136Updated 3 months ago
• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆74Updated 7 months ago
• Yelab2020 / Cottrazm
  Construct Tumor Transition Zone Microenvironment
  ☆53Updated 7 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆118Updated 3 months ago
• YMa-lab / CARD
  ☆129Updated last year
• 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…
  ☆40Updated 4 years ago
• data2intelligence / SpaCET
  Spatial Cellular Estimator for Tumors
  ☆60Updated last month
• zhengrongbin / MEBOCOST
  A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data
  ☆78Updated 6 months ago
• ccruizm / GBmap
  Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…
  ☆65Updated 3 years ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆77Updated last year
• BostonGene / MFP
  Mollecular Functional Portraits
  ☆43Updated last year
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆173Updated 4 months ago
• data2intelligence / CytoSig
  ☆60Updated last month
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆150Updated 3 weeks ago
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆88Updated 2 weeks ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆107Updated 2 years ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆82Updated 9 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆179Updated 5 months ago
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆58Updated 2 years ago
• QiangShiPKU / CoVarNet
  ☆54Updated 6 months ago
• Aleksobrad / single-cell-rcc-pipeline
  Data files and code for analysis of single-cell ccRCC data for the manuscript "Tumor-Specific Cell Populations in Clear Cell Renal Carcin…
  ☆53Updated 4 years ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆116Updated 9 months ago
• PaulingLiu / ROGUE
  Assessing the purity of single cell population
  ☆141Updated 3 years ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆75Updated last year