featureDIPRODB: Feature Coding by Dinucleotide Property
In BioSeqClass: Classification for Biological Sequences

Description Usage Arguments Details Author(s) Examples

Sequences are coded by conformational or thermodynamic dinucleotide property from DiProDB database.

1 2	featureDIPRODB(seq, na.type="all", na.strand="all", diprodb.method="all", diprodb.type="all")

`seq`	a string vector for the protein, DNA, or RNA sequences.
`na.type`	a string for nucleic acid type. It must be "DNA", "DNA/RNA", "RNA", or "all".
`na.strand`	a string for strand information. It must be "double", "single", or "all".
`diprodb.method`	a string for mode of property determination. It can be "experimental", "calculated", or "all".
`diprodb.type`	a string for property type. It can be "physicochemical", "conformational", "letter based", or "all".

featureDIPRODB returns a matrix with 122 columns. Each column is the mean of conformational or thermodynamic dinucleotide property from DiProDB database (http://diprodb.fli-leibniz.de).

Hong Li

if(interactive()){
  file = file.path(path.package("BioSeqClass"), "example", "test.rna")    
  rna = as.matrix(read.csv(file,header=F,sep="\t"))[,1]
  
  DIPRODB1 = featureDIPRODB(rna)
  DIPRODB2 = featureDIPRODB(rna, na.type="RNA")
}