Alternatives and similar repositories for SpaTalk

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

• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆113Updated last year
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆79Updated 6 months ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆88Updated last year
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆51Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆131Updated 4 months ago
• ZJUFanLab / scRank
  A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gen…
  ☆50Updated last month
• 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…
  ☆39Updated 3 years ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆108Updated 9 months ago
• data2intelligence / SpaCET
  Spatial Cellular Estimator for Tumors
  ☆53Updated last month
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• YingMa0107 / IRIS
  Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics
  ☆36Updated 5 months ago
• xiaoyeye / TFvelo
  ☆45Updated last year
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆59Updated last year
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆64Updated 5 months ago
• navinlabcode / CellTrek
  ☆122Updated 3 years ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆61Updated last week
• data2intelligence / CytoSig
  ☆53Updated 9 months ago
• 10XGenomics / HumanColonCancer_VisiumHD
  Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…
  ☆84Updated last month
• ZJUFanLab / scSpace
  an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial tran…
  ☆23Updated 2 years ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 2 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆108Updated 3 months ago
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆93Updated 3 years ago
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆51Updated last month
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆133Updated 2 years ago
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆54Updated 2 months ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆82Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆72Updated 4 months ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆75Updated 10 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆101Updated 10 months ago