# 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