{ "_id": "6a1b06c21d7bb097a0a041a2", "Package": "SynMut", "Type": "Package", "Title": "SynMut: Designing Synonymously Mutated Sequences with Different\nGenomic Signatures", "Version": "1.28.0", "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. 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of certain codon.", "topics": [ "codon_to", "codon_to,regioned_dna-method" ] }, { "page": "dinu_dist-methods", "title": "Calculating the dinucleotide usage difference between sequences", "topics": [ "dinu_dist", "dinu_dist,ANY-method" ] }, { "page": "dinu_to-methods", "title": "Maximize or minimize the usage of certain dinucleotide.", "topics": [ "dinu_to", "dinu_to,regioned_dna-method" ] }, { "page": "get_cu-methods", "title": "Get codon usage matrix", "topics": [ "get_cu", "get_cu,DNAStringSet-method", "get_cu,regioned_dna-method" ] }, { "page": "get_dna-methods", "title": "Get the DNAStringSet data", "topics": [ "get_dna", "get_dna,regioned_dna-method" ] }, { "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", 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