{
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  "Package": "blase",
  "Title": "Bulk Linking Analysis for Single-cell Experiments",
  "Version": "1.3.0",
  "Authors@R": "c(\nperson(\"Andrew\", \"McCluskey\", , \"2117532m@student.gla.ac.uk\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0009-0004-4187-799X\")),\nperson(\"Toby\", \"Kettlewell\", , , role = c(\"aut\"), comment = c(ORCID = \"0009-0001-1225-3318\")),\nperson(\"Adrian M.\", \"Smith\", , , role = c(\"aut\"), comment = c(ORCID=\"0000-0001-8833-2330\")),\nperson(\"Rhiannon\", \"Kundu\", , , role = c(\"aut\"), comment = c(ORCID=\"0000-0003-3970-5860\")),\nperson(\"David A.\", \"Gunn\", , , role = c(\"aut\"), comment = c(ORCID=\"0000-0001-9866-3221\")),\nperson(\"Thomas D.\", \"Otto\", , , role=c(\"aut\",\"ths\"), comment=c(ORCID = \"0000-0002-1246-7404\")))",
  "Description": "BLASE is a method for finding where bulk RNA-seq data lies\non a single-cell pseudotime trajectory. It uses a fast and\nunderstandable approach based on Spearman correlation, with\nbootstrapping to provide confidence. BLASE can be used to\n\"date\" bulk RNA-seq data, annotate cell types in scRNA-seq, and\nhelp correct for developmental phenotype differences in bulk\nRNA-seq experiments.",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
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  "biocViews": "Transcriptomics, SingleCell, Sequencing, GeneExpression,\nTranscription, RNASeq, TimeCourse, CellBiology, Software,\nCellBasedAssays",
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  "URL": "https://andrewmccluskey-uog.github.io/blase/",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:05:33 UTC",
  "RemoteUrl": "https://github.com/bioc/blase",
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  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-23 09:58:14 UTC",
    "User": "root"
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  "Author": "Andrew McCluskey [aut, cre] (ORCID:\n<https://orcid.org/0009-0004-4187-799X>),\nToby Kettlewell [aut] (ORCID: <https://orcid.org/0009-0001-1225-3318>),\nAdrian M. Smith [aut] (ORCID: <https://orcid.org/0000-0001-8833-2330>),\nRhiannon Kundu [aut] (ORCID: <https://orcid.org/0000-0003-3970-5860>),\nDavid A. Gunn [aut] (ORCID: <https://orcid.org/0000-0001-9866-3221>),\nThomas D. Otto [aut, ths] (ORCID:\n<https://orcid.org/0000-0002-1246-7404>)",
  "Maintainer": "Andrew McCluskey <2117532m@student.gla.ac.uk>",
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    "plot_mapping_result_heatmap",
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    "smooth_gene",
    "strong_mapping",
    "top_2_distance"
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      "title": "Malaria Cell Atlas Plasmodium falciparum for BLASE Vignette",
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      "file": "MCA_PF_SCE.rda",
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      "rows": 1731,
      "table": true,
      "tojson": true
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      "object": "tradeSeq_BLASE_example_sce",
      "file": "tradeSeq_BLASE_example_sce.rda",
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      "title": "Annotate a SCE with BLASE Mappings",
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    },
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      "page": "as.BlaseData",
      "title": "Conversion to BlaseData",
      "concept": [
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      "topics": [
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        "as.BlaseData,SingleCellExperiment-method"
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      "title": "Assign Pseudotime Bins to a source object's metadata",
      "concept": [
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        "assign_pseudotime_bins,data.frame-method",
        "assign_pseudotime_bins,Seurat-method",
        "assign_pseudotime_bins,SingleCellExperiment-method"
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    {
      "page": "mapping-result-best-bin-getter",
      "title": "Get best bin of a BLASE Mapping Results object.",
      "concept": [
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      ],
      "topics": [
        "best_bin",
        "best_bin,MappingResult-method"
      ]
    },
    {
      "page": "mapping-result-best-correlation-getter",
      "title": "Get best correlation of a BLASE Mapping Results object.",
      "concept": [
        "mapping-result-object"
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      "topics": [
        "best_correlation",
        "best_correlation,MappingResult-method"
      ]
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    {
      "page": "BlaseData-class",
      "title": "Blase Data Object",
      "concept": [
        "blase-object"
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      "topics": [
        "BlaseData",
        "BlaseData-class"
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    },
    {
      "page": "mapping-result-bootstrap-iterations-getter",
      "title": "Get the number of bootstrap iterations performed for a BLASE Mapping Results object.",
      "concept": [
        "mapping-result-object"
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      "topics": [
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        "bootstrap_iterations,MappingResult-method"
      ]
    },
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      "page": "mapping-result-bulk-name-getter",
      "title": "Get name of bulk of a BLASE Mapping Results object.",
      "concept": [
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      "topics": [
        "bulk_name",
        "bulk_name,MappingResult-method"
      ]
    },
    {
      "page": "bulk_name-setter",
      "title": "Set name of bulk of a BLASE Mapping Results object.",
      "concept": [
        "mapping-result-object"
      ],
      "topics": [
        "bulk_name<-",
        "bulk_name<-,MappingResult-method"
      ]
    },
    {
      "page": "calculate_gene_peakedness",
      "title": "calculate_gene_peakedness",
      "concept": [
        "gene-selection"
      ],
      "topics": [
        "calculate_gene_peakedness"
      ]
    },
    {
      "page": "evaluate_parameters",
      "title": "Evaluate n_bins and n_genes for bin mapping",
      "concept": [
        "tuning"
      ],
      "topics": [
        "evaluate_parameters"
      ]
    },
    {
      "page": "evaluate_top_n_genes",
      "title": "Evaluate Top Genes",
      "concept": [
        "tuning"
      ],
      "topics": [
        "evaluate_top_n_genes"
      ]
    },
    {
      "page": "find_best_params",
      "title": "Identify the Best Parameters For Your Dataset",
      "concept": [
        "tuning"
      ],
      "topics": [
        "find_best_params"
      ]
    },
    {
      "page": "gene_peakedness_spread_selection",
      "title": "Gene Peakedness Spread Selection",
      "concept": [
        "gene-selection"
      ],
      "topics": [
        "gene_peakedness_spread_selection"
      ]
    },
    {
      "page": "genes-getter",
      "title": "Get genes of a BLASE Data object.",
      "concept": [
        "blase-object"
      ],
      "topics": [
        "genes",
        "genes,BlaseData-method"
      ]
    },
    {
      "page": "genes-setter",
      "title": "Set genes of a BLASE Data object.",
      "concept": [
        "blase-object"
      ],
      "topics": [
        "genes<-",
        "genes<-,BlaseData-method"
      ]
    },
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      "page": "get_bins_as_bulk",
      "title": "Get a pseudobulk of bins with at least 2 replicates",
      "concept": [
        "util"
      ],
      "topics": [
        "get_bins_as_bulk"
      ]
    },
    {
      "page": "get_top_n_genes",
      "title": "Get Top Genes From An AssociationTestResult",
      "concept": [
        "gene-selection"
      ],
      "topics": [
        "get_top_n_genes"
      ]
    },
    {
      "page": "map_all_best_bins",
      "title": "Map many bulk samples in the same dataframe",
      "concept": [
        "mapping"
      ],
      "topics": [
        "map_all_best_bins"
      ]
    },
    {
      "page": "map_best_bin",
      "title": "Map the best matching SC bin for a bulk sample",
      "concept": [
        "mapping"
      ],
      "topics": [
        "map_best_bin"
      ]
    },
    {
      "page": "mapping-result-history-getter",
      "title": "Get the mapping history for a BLASE Mapping Results object.",
      "concept": [
        "mapping-result-object"
      ],
      "topics": [
        "mapping_history",
        "mapping_history,MappingResult-method"
      ]
    },
    {
      "page": "MappingResult",
      "title": "Blase Mapping Result",
      "concept": [
        "mapping-result-object"
      ],
      "topics": [
        "MappingResult",
        "MappingResult-class"
      ]
    },
    {
      "page": "MCA_PF_SCE",
      "title": "Malaria Cell Atlas Plasmodium falciparum for BLASE Vignette",
      "concept": [
        "data"
      ],
      "topics": [
        "MCA_PF_SCE"
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