view_tomtom_hits {memes} | R Documentation

## Compare top tomtom hits to original motif

### Description

Although TomTom does a good job of matching unknown motifs to known motifs, sometimes the top hit is not the correct assignment. It can be useful to manually inspect the hits. This function provides a quick utility to compare matches.

### Usage

    view_tomtom_hits(results, top_n = "all")

### Arguments

`results` | results data.frame from [runTomTom()]
`top_n` | number of matched motifs to return in plot (default: "all")

### Details

This is intended to be a function used interactively and may not always be the best tool for creating publication-quality figures. Results with matches return ggseqlogo outputs which can be further manipulated using [ggplot2::theme()] calls, but results containing no matches are static plots.

### Value

plot of input motif vs the top n number of tomtom matched motifs. If no match found, will plot "No Match". Note: the "No Match" plots are not amenable to ggplot theme() manipulations, while all others are.

### Examples

    results <- importTomTomXML(system.file("extdata", "tomtom.xml", package = "memes"))
    # show top 3 hits
    view_tomtom_hits(results, top_n = 3)

[Package memes version 1.0.4 Index]