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GenomicSig
View on CRAN: Click
here
Download and install GenomicSig package within the R console
Install from CRAN:
install.packages("GenomicSig")
Install from Github:
library("remotes")
install_github("cran/GenomicSig")
Install by package version:
library("remotes")
install_version("GenomicSig", "0.1.0")
Attach the package and use:
library("GenomicSig")
Maintained by
Anu Sharma
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2024-09-11
Latest Update: 2024-09-11
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>.
How to cite:
Anu Sharma (2024). GenomicSig: Computation of Genomic Signatures. R package version 0.1.0, https://cran.r-project.org/web/packages/GenomicSig. Accessed 23 Dec. 2024.
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