In mathornton01/Genomic-DFT-Yin-R: Fourier Analysis for Genomic Signals

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YinGenomicDFTDistances is an R-package with the express purpose of compiling and allowing for the analysis of the periodic components of genomic sequences similar to those that are discussed in the Yin and Yau papers of 2014 and 2015. This package will allow you to:

• Encode a single genomic signal using the 2D (Yin 2015) or 4D (Yin 2014) encoding
• Encode an ensemble of genomic signals using the optimal 2D encoding method
• Determine the optimal 2D encoding method for an ensemble of genomic signals

Encoding genomic strings

The package itself expects genomic strings to be in the standard FASTA format in terms of the nucleotides that are displayed. However when handeling ensembles of strings, the primary data structure expected is a list of character strings. When handeling a single genomic signal a single character string is expected. The software in the package includes functions that will allow for the automated encoding of a single string, or an ensemble of strings, as well as making a determination of the

Example

mathornton01/Genomic-DFT-Yin-R documentation built on Dec. 21, 2021, 2:52 p.m.