The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

GenomicSig: Computation of Genomic Signatures

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>.

Version: 0.1.0
Depends: R (≥ 3.5.0)
Imports: kaos, Biostrings, stats, entropy, seqinr
Published: 2024-09-11
DOI: 10.32614/CRAN.package.GenomicSig
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]
Maintainer: Anu Sharma <anu.sharma at icar.gov.in>
License: GPL-3
NeedsCompilation: no
CRAN checks: GenomicSig results

Documentation:

Reference manual: GenomicSig.pdf

Downloads:

Package source: GenomicSig_0.1.0.tar.gz
Windows binaries: r-devel: GenomicSig_0.1.0.zip, r-release: GenomicSig_0.1.0.zip, r-oldrel: GenomicSig_0.1.0.zip
macOS binaries: r-release (arm64): GenomicSig_0.1.0.tgz, r-oldrel (arm64): GenomicSig_0.1.0.tgz, r-release (x86_64): GenomicSig_0.1.0.tgz, r-oldrel (x86_64): GenomicSig_0.1.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=GenomicSig to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.