Alternatives and similar repositories for Hotspot

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

• navinlabcode / CellTrek
  ☆129Updated 3 years ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆117Updated 3 months ago
• 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
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆136Updated 3 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆117Updated last year
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆82Updated 9 months ago
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆100Updated 3 years ago
• YMa-lab / CARD
  ☆129Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆106Updated last year
• 10XGenomics / HumanColonCancer_VisiumHD
  Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…
  ☆109Updated 7 months ago
• data2intelligence / CytoSig
  ☆60Updated 3 weeks ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆127Updated 8 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆81Updated 11 months ago
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆132Updated 3 months ago
• 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
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆79Updated this week
• 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 last week
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆131Updated last year
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆143Updated 2 years ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆115Updated 9 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆121Updated 3 months ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆85Updated 2 years ago
• jaleesr / SenePy
  SenePy is a set of tools to score single-cells based on their expression of cell-specific senescence markers. Please see the following pu…
  ☆47Updated last year
• ShobiStassen / VIA
  trajectory inference
  ☆105Updated last year
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆62Updated 5 months ago
• YosefLab / popV
  ☆88Updated last week
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆144Updated 3 weeks ago
• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆72Updated 7 months ago
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆84Updated 10 months ago