topTraitsOfTargets {TFutils} | R Documentation

## Use MSigDB TF targets resource to find targets of input TF and find traits to which these targets have been mapped

### Description

Use MSigDB TF targets resource to find targets of input TF and find traits to which these targets have been mapped

### Usage

    topTraitsOfTargets(TFsym, gsc, gwcat, ntraits = 6, force = FALSE, ...)

### Arguments

`TFsym` | character(1) symbol for a TF must be present in `tftCollMap[, "hgnc.heur"]`
`gsc` | an instance of `GeneSetCollection-class`, intended to enumerate targets of a single transcription factor in each GeneSet, as in TFutils::tftColl
`gwcat` | instance of `gwaswloc-class`
`ntraits` | numeric(1) number of traits to report
`force` | logical see note, set to true if you want to skip mapping from TFsym to a specific motif or TF identifier used as name of a GeneSet in gsc
`...` | character() vector of fields in mcols(gwcat) to include

### Value

data.frame symbol, set force = TRUE to use a known 'motif' name among `names(gsc)`

### Note

If `tftCollMap[, "hgnc.heur"]` does not possess the necessary

### Examples

    suppressPackageStartupMessages({
    library(GSEABase)
    })  # more results if you substitute ebicat37 from gwascat below
    topTraitsOfTargets("MTF1" , tftColl, gwascat_hg19_chr17)

[Package TFutils version 1.14.0 Index]