initIUPAClookupTable {transite}R Documentation

Initializes the IUPAC lookup table

Description

Initializes a hash table that serves as a IUPAC lookup table for the generateIUPACByMatrix function.

Usage

initIUPAClookupTable()

Details

IUPAC RNA nucleotide code:

A Adenine
C Cytosine
G Guanine
U Uracil
R A or G
Y C or U
S G or C
W A or U
K G or U
M A or C
B C or G or U
D A or G or U
H A or C or U
V A or C or G
N any base

Value

an environment, the IUPAC lookup hash table

References

http://www.chem.qmul.ac.uk/iubmb/misc/naseq.html

See Also

Other motif functions: generateIUPACByKmers, generateIUPACByMatrix, generateKmersFromIUPAC, getMotifById, getMotifByRBP, getMotifs, getPPM, motifsMetaInfo, setMotifs

Examples

generateIUPACByMatrix(motifMatrix(getMotifById("M178_0.6")[[1]]),
  code = initIUPAClookupTable())

[Package transite version 1.2.0 Index]