{ "_id": "6a1bf6291d7bb097a0a26348", "Package": "vhcub", "Title": "Virus-Host Codon Usage Co-Adaptation Analysis", "Version": "1.0.0", "Authors@R": "c(\nperson(given = \"Ali\",family = \"Mostafa Anwar\",role = c(\"aut\", \"cre\"),email = \"ali.mo.anwar@std.agr.cu.edu.eg\"),\nperson(given = \"Mohamed\",family = \"Soudy\",email = \"MohmedSoudy2009@gmail.com\", role = \"aut\"))", "Author": "Ali Mostafa Anwar [aut, cre], Mohamed Soudy [aut]", "Maintainer": "Ali Mostafa Anwar ", "Description": "Analyze the co-adaptation of codon usage between a virus\nand its host,calculate various codon usage bias measurements\nas; effective number of codons (ENc) Novembre (2002)\n, codon adaptation\nindex (CAI) Sharp and Li (1987) ,\nrelative codon deoptimization index (RCDI) Puigbò et al (2010)\n, similarity index (SiD) Zhou et al\n(2013) , synonymous codon\nusage orderliness (SCUO) Wan et al (2004)\n and, relative synonymous codon\nusage (RSCU) Sharp et al (1986) .\nAlso, it provides a statistical dinucleotide over- and\nunderrepresentation with three different models. 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