Alternatives and similar repositories for stereoscope:

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

• navinlabcode / CellTrek
  ☆115Updated 3 years ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆100Updated 2 weeks ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆124Updated last month
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated last week
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆88Updated 3 months ago
• YMa-lab / CARD
  ☆111Updated last year
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆76Updated 3 weeks ago
• zhengrongbin / MEBOCOST
  A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data
  ☆72Updated 4 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 9 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆112Updated last week
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• theislab / spatial_scog_workshop_2022
  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
  ☆53Updated 2 years ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆106Updated 2 weeks ago
• 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
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆97Updated last year
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆52Updated 6 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆55Updated 9 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆40Updated 3 years ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆81Updated last year
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆122Updated 5 months ago
• PaulingLiu / ROGUE
  Assessing the purity of single cell population
  ☆122Updated 2 years ago
• zcang / COMMOT
  ☆114Updated 11 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆103Updated 2 years ago
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆62Updated 2 years ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆106Updated 2 months ago
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆49Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆69Updated 2 months ago
• SpatialTranscriptomicsResearch / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆82Updated 3 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆114Updated 6 months ago
• YosefLab / popV
  ☆71Updated last week