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  "Title": "Pattern Support for 'qtl2' Package",
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  "Date": "2025-07-16",
  "Authors@R": "c(person(\"Brian S Yandell\",\nrole = c(\"aut\", \"cre\"),\nemail = \"brian.yandell@wisc.edu\"))",
  "Description": "Routines in 'qtl2' to study allele patterns in\nquantitative trait loci (QTL) mapping over a chromosome. Useful\nin crosses with more than two alleles to identify how sets of\nalleles, genetically different strands at the same locus, have\ndifferent response levels. Plots show profiles over a\nchromosome. Can handle multiple traits together. See\n<https://github.com/byandell/qtl2pattern>.",
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  "Date/Publication": "2025-07-16 22:32:46 UTC",
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    "sdp_to_pattern",
    "snpprob_collapse",
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    {
      "page": "allele1",
      "title": "Allele plot for SNPs, alleles and allele pairs",
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        "autoplot.allele1",
        "ggplot_allele1"
      ]
    },
    {
      "page": "create_probs_query_func",
      "title": "Create a function to query genotype probabilities",
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      ]
    },
    {
      "page": "gene_exon",
      "title": "Get exons for set of genes",
      "topics": [
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        "gene_exon",
        "ggplot_gene_exon",
        "subset.gene_exon",
        "summary.gene_exon"
      ]
    },
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      "title": "Collapse genoprob according to pattern",
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    },
    {
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      "title": "Match features with SNPs",
      "topics": [
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    },
    {
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      "title": "Match genes with SNPs",
      "topics": [
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      ]
    },
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      ]
    },
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      "topics": [
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        "ggplot_merge_feature",
        "merge_feature",
        "summary.merge_feature"
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      "page": "scan1pattern",
      "title": "Plot scan pattern usign ggplot2",
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        "ggplot_scan1pattern",
        "scan1pattern",
        "summary.scan1pattern"
      ]
    },
    {
      "page": "pattern_diplos",
      "title": "Extract pattern of diplotypes",
      "topics": [
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        "pattern_haplos"
      ]
    },
    {
      "page": "pattern_label",
      "title": "Turn genotype probabilities into labels",
      "topics": [
        "pattern_label",
        "pattern_sdp"
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    },
    {
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      "title": "Read fast database with possible rownames",
      "topics": [
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      ]
    },
    {
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      "title": "Read genotype probability object from file",
      "topics": [
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      ]
    },
    {
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        "sdp_to_pattern"
      ]
    },
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        "Download of Diversity Outbred Example Data",
        "SNP Association Mapping near Peak",
        "Strain Distribution Pattern (SDP) Scan",
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