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  "Package": "CARDspa",
  "Title": "Spatially Informed Cell Type Deconvolution for Spatial\nTranscriptomics",
  "Version": "1.5.0",
  "Date": "2025-2-6",
  "Authors@R": "c(person(given = \"Ying\",\nfamily = \"Ma\",\nemail = \"ying_ma@brown.edu\",\nrole = \"aut\"),\nperson(given = \"Jing\",\nfamily = \"Fu\",\nemail = \"jing_fu@brown.edu\",\nrole = \"cre\"))",
  "Description": "CARD is a reference-based deconvolution method that\nestimates cell type composition in spatial transcriptomics\nbased on cell type specific expression information obtained\nfrom a reference scRNA-seq data. A key feature of CARD is its\nability to accommodate spatial correlation in the cell type\ncomposition across tissue locations, enabling accurate and\nspatially informed cell type deconvolution as well as refined\nspatial map construction. CARD relies on an efficient\noptimization algorithm for constrained maximum likelihood\nestimation and is scalable to spatial transcriptomics with tens\nof thousands of spatial locations and tens of thousands of\ngenes.",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:04:29 UTC",
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      "title": "The function to assign the spatial location information for each single cell",
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      "page": "CARD_visualize_Cor",
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      "page": "CARD_visualize_prop_2CT",
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      "title": "Each CARD object has a number of slots which store information. Key slots to access are listed below.",
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      "title": "Example_Analysis",
      "author": "Ying Ma",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Required input data",
        "1. spatial transcriptomics data, e.g.,",
        "2. single cell RNAseq ((scRNA-seq)) data,  e.g.,",
        "Cell Type Deconvolution",
        "1. Deconvolution using CARD",
        "2. Visualize the proportion for each cell type",
        "3. Visualize the proportion for two cell types",
        "5. Visualize the cell type proportion correlation",
        "Refined spatial map",
        "1. Imputation on the newly grided spatial locations",
        "2. Visualize the cell type proportion at an enhanced resolution",
        "3. Visualize the marker gene expression at an enhanced resolution",
        "Extension of CARD in a reference-free version: CARDfree",
        "1. Deconvolution using CARDfree",
        "3. Visualization of the results of CARDfree",
        "Extension of CARD for single cell resolution mapping",
        "Session information",
        "References"
      ],
      "created": "2024-06-26 06:52:01",
      "modified": "2024-11-12 15:03:25",
      "commits": 5
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