Package: GenomicSig
Type: Package
Title: Computation of Genomic Signatures
Version: 0.1.0
Authors@R: 
  c(person("Mailarlinga", role = c("aut"), email = "jessimailar@gmail.com"), person("Shashi Bhushan Lal",  role = c("aut"), email = "sb.lal@icar.gov.in"), person("Anu Sharma", role = c("aut", "cre"), email = "anu.sharma@icar.gov.in"), person("Dwijesh Chandra Mishra", role = c("aut"), email = "dwij.mishra@gmail.com"), person("Sudhir Srivastava", role = c("aut"), email = "Sudhir.Srivastava@icar.gov.in"), person("Sanjeev Kumar", role = c("aut"), email = "sanjeev.kumar@icar.gov.in"), person("Girish Kumar Jha", role = c("aut"), email = "girish.jha@icar.gov.in"), person("Sayanti Guha Majumdar", role = c("aut"), email = "sayanti.guha@icar.gov.in"), person("Megha Garg", role = c("aut"), email = "meghagarg1989@gmail.com"), person("Sharanbasappa", role = c("ctb"), email = "smadival509@gmail.com"), person("Kabilan", "S", role = c("ctb"), email = "kabilan151414@gmail.com"))
Maintainer: Anu Sharma <anu.sharma@icar.gov.in>
Description: Genomic signatures represent unique features within a species' DNA, enabling the differentiation of species and offering broad applications across various fields. This package provides essential tools for calculating these specific signatures, streamlining the process for researchers and offering a comprehensive and time-saving solution for genomic analysis.The amino acid contents are identified based on the work published by Sandberg et al. (2003) <doi:10.1016/s0378-1119(03)00581-x> and Xiao et al. (2015) <doi:10.1093/bioinformatics/btv042>. The Average Mutual Information Profiles (AMIP) values are calculated based on the work of Bauer et al. (2008) <doi:10.1186/1471-2105-9-48>. The Chaos Game Representation (CGR) plot visualization was done based on the work of Deschavanne et al. (1999) <doi:10.1093/oxfordjournals.molbev.a026048> and Jeffrey et al. (1990) <doi:10.1093/nar/18.8.2163>. The GC content is calculated based on the work published by Nakabachi et al. (2006) <doi:10.1126/science.1134196> and Barbu et al. (1956) <https://pubmed.ncbi.nlm.nih.gov/13363015>. The Oligonucleotide Frequency Derived Error Gradient (OFDEG) values are computed based on the work published by Saeed et al. (2009) <doi:10.1186/1471-2164-10-S3-S10>. The Relative Synonymous Codon Usage (RSCU) values are calculated based on the work published by Elek (2018) <https://urn.nsk.hr/urn:nbn:hr:217:686131>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
RoxygenNote: 7.3.2
Imports: kaos, Biostrings, stats, entropy, seqinr
NeedsCompilation: no
Packaged: 2024-09-09 07:40:03 UTC; kabil
Author: Mailarlinga [aut],
  Shashi Bhushan Lal [aut],
  Anu Sharma [aut, cre],
  Dwijesh Chandra Mishra [aut],
  Sudhir Srivastava [aut],
  Sanjeev Kumar [aut],
  Girish Kumar Jha [aut],
  Sayanti Guha Majumdar [aut],
  Megha Garg [aut],
  Sharanbasappa [ctb],
  Kabilan S [ctb]
Repository: CRAN
Date/Publication: 2024-09-11 16:30:02 UTC
Built: R 4.6.0; ; 2026-04-26 13:10:52 UTC; unix
