createKmerMotif {transite} | R Documentation

## Creates Transite motif object from character vector of k-mers

### Description

Takes a position weight matrix (PWM) and meta info and returns an object of class `RBPMotif`.

### Usage

    createKmerMotif(id, rbps, kmers, type, species, src)

### Arguments

`id` | motif id (character vector of length 1)
`rbps` | character vector of names of RNA-binding proteins associated with this motif
`kmers` | character vector of k-mers that are associated with the motif, set of k-mers is valid if (1) all k-mers must have the same length, (2) only hexamers or heptamers allowed, (3) allowed characters are A, C, G, U
`type` | type of motif (e.g., `'HITS-CLIP'`, `'EMSA'`, `'SELEX'`, etc.)
`species` | species where motif was discovered (e.g., `'Homo sapiens'`)
`src` | source of motif (e.g., `'RBPDB v1.3.1'`)

### Value

object of class `RBPMotif`

### Examples

    custom.motif <- createKmerMotif(
      "custom.motif", "RBP1",
      c("AAAAAAA", "CAAAAAA"), "HITS-CLIP",
      "Homo sapiens", "user"
    )

[Package transite version 1.0.2 Index]