generateKmersFromIUPAC {transite} | R Documentation

## Generates all k-mers for IUPAC string

### Description

Generates all possible k-mers for a given IUPAC string.

### Usage

    generateKmersFromIUPAC(iupac, k)

### Arguments

`iupac` | IUPAC string
`k` | length of k-mer, `6` (hexamers) or `7` (heptamers)

### 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

list of k-mers

### References

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

### See Also

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

### Examples

    generateKmersFromIUPAC(motifIUPAC(getMotifById("M178_0.6")[[1]]), k = 6)

[Package transite version 1.2.1 Index]