Generating Various Numerical Representation Schemes of DNA Sequences

---

Documentation for package ‘rDNAse’ version 1.1-1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

dnacheck	Check if the DNA sequence are in the 4 default types
extrDAC	The Dinucleotide-based Auto Covariance Descriptor
extrDACC	The Dinucleotide-based Auto-cross Covariance Descriptor
extrDCC	The Dinucleotide-based Cross Covariance Descriptor
extrPseDNC	The Pseudo Dinucleotide Composition Descriptor
extrPseKNC	The Pseudo K-tupler Composition Descriptor
extrTAC	The Trinucleotide-based Auto Covariance Descriptor
extrTACC	The Trinucleotide-based Auto-cross Covariance Descriptor
extrTCC	The Trinucleotide-based Cross Covariance Descriptor
getGenbank	Get DNA/RNA Sequences from Genbank by GI ID
IncDiv	The Increment Of Diversity Descriptors
kmer	The Basic Kmer Descriptor
make_idkmer_vec	The Increment Of Diversity Descriptors
make_kmer_index	Calculate The Basic Kmer Feature Vector
parGOSim	DNA Sequence Similarity Calculation based on Gene Ontology (GO) Similarity
parSeqSim	Parallellized DNA/RNA Sequence Similarity Calculation based on Sequence Alignment
readFASTA	Read DNA/RNA Sequences in FASTA Format
revchars	The Reverse chars
twoGOSim	DNA Similarity Calculation based on Gene Ontology (GO) Similarity
twoSeqSim	DNA/RNA Sequence Alignment for Two DNA/RNA Sequences