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  "Title": "SynMut: Designing Synonymously Mutated Sequences with Different\nGenomic Signatures",
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  "Authors@R": "c(person(\"Haogao\", \"Gu\", email = \"hggu@connect.hku.hk\", role = c(\"aut\", \"cre\")),\nperson(\"Leo L.M.\", \"Poon\", email = \"llmpoon@hku.hk\", role = \"led\"))",
  "Description": "There are increasing demands on designing virus mutants\nwith specific dinucleotide or codon composition. This tool can\ntake both dinucleotide preference and/or codon usage bias into\naccount while designing mutants. It is a powerful tool for in\nsilico designs of DNA sequence mutants.",
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  "URL": "https://github.com/Koohoko/SynMut",
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    "codon_to",
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    "dinu_to",
    "get_cu",
    "get_dna",
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    "get_freq",
    "get_nu",
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    "get_rscu",
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      "page": "codon_dist-methods",
      "title": "Calculating the codon usage difference between sequences",
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        "codon_dist,ANY-method"
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        "codon_mimic,regioned_dna,DNAStringSet-method",
        "codon_mimic,regioned_dna,vector-method"
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        "codon_random,regioned_dna-method"
      ]
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        "codon_to,regioned_dna-method"
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        "dinu_dist,ANY-method"
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        "get_cu,DNAStringSet-method",
        "get_cu,regioned_dna-method"
      ]
    },
    {
      "page": "get_dna-methods",
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        "get_dna,regioned_dna-method"
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    },
    {
      "page": "get_du-methods",
      "title": "Get dinucleotide usage matrix",
      "topics": [
        "get_du",
        "get_du,DNAStringSet-method",
        "get_du,regioned_dna-method"
      ]
    },
    {
      "page": "get_freq-methods",
      "title": "Get codon usage frequency of synonymous codons",
      "topics": [
        "get_freq",
        "get_freq,DNAStringSet-method",
        "get_freq,matrix-method",
        "get_freq,regioned_dna-method",
        "get_freq,vector-method"
      ]
    },
    {
      "page": "get_nu-methods",
      "title": "Get nucleotide usage matrix",
      "topics": [
        "get_nu",
        "get_nu,DNAStringSet-method",
        "get_nu,regioned_dna-method"
      ]
    },
    {
      "page": "get_region-methods",
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      "title": "SynMut: Tools for Designing Synonymously Mutated Sequences",
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      "headings": [
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