featureDIPRODB {BioSeqClass} | R Documentation |
Sequences are coded by conformational or thermodynamic dinucleotide property from DiProDB database.
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") }