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  "Description": "Utility functions for mutational signature analysis as\ndescribed in Alexandrov, L. B. (2020)\n<doi:10.1038/s41586-020-1943-3>. This package provides two\ngroups of functions. One is for dealing with mutational\nsignature \"exposures\" (i.e. the counts of mutations in a sample\nthat are due to each mutational signature). The other group of\nfunctions is for matching or comparing sets of mutational\nsignatures. 'mSigTools' stands for mutational Signature\nanalysis Tools.",
  "License": "GPL-3",
  "URL": "https://github.com/Rozen-Lab/mSigTools",
  "BugReports": "https://github.com/Rozen-Lab/mSigTools/issues",
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  "Repository": "https://rozen-lab.r-universe.dev",
  "Date/Publication": "2024-04-13 08:02:46 UTC",
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  "Author": "Steven Rozen [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-4288-0056>),\nNanhai Jiang [aut] (ORCID: <https://orcid.org/0000-0003-4974-2753>)",
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    "match_two_sig_sets",
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      "page": "find_best_reconstruction_QP",
      "title": "Find \"best\" reconstruction of a target signature or spectrum from a set of signatures.",
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      ]
    },
    {
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        "match_two_sig_sets"
      ]
    },
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      "title": "Quadratic programming optimization of signature activities",
      "topics": [
        "optimize_exposure_QP"
      ]
    },
    {
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      "title": "Plot exposures in multiple plots, with each plot showing exposures for a manageable number of samples.",
      "topics": [
        "plot_exposure"
      ]
    },
    {
      "page": "plot_exposure_to_pdf",
      "title": "Plot exposures in multiple plots to a single PDF file, with each plot showing exposures for a manageable number of samples.",
      "topics": [
        "plot_exposure_to_pdf"
      ]
    },
    {
      "page": "read_exposure",
      "title": "Read an exposure matrix from a file.",
      "topics": [
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      ]
    },
    {
      "page": "sig_dist_matrix",
      "title": "Compute a matrix of distances / similarities between two sets of signatures.",
      "topics": [
        "sig_dist_matrix"
      ]
    },
    {
      "page": "sort_exposure",
      "title": "Sort columns of an exposure matrix based on the number of mutations in each sample (column).",
      "topics": [
        "sort_exposure"
      ]
    },
    {
      "page": "TP_FP_FN_avg_sim",
      "title": "Find best matches (by cosine similarity) of a set of mutational signatures to a set of reference mutational signatures.",
      "topics": [
        "TP_FP_FN_avg_sim"
      ]
    },
    {
      "page": "write_exposure",
      "title": "Write an exposure matrix to a file.",
      "topics": [
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      ]
    }
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