show,HumanDHSFilter-method {trena} | R Documentation

## Show the details of a human DHS filter

### Description

Show the details of a human DHS filter

### Usage

    ## S4 method for signature 'HumanDHSFilter'
    show(object)

### Arguments

`object` | An object of class HumanDHSFilter

### Value

A list, where one element a character vector of transcription factors that match the GO term and the other is an empty data frame.

### See Also

`HumanDHSFilter`

### Examples

    ## Not run:
       # Make a filter and show it
       # load(system.file(package="trena", "extdata/ampAD.154genes.mef2cTFs.278samples.RData"))
       targetGene <- "VRK2"
       promoter.length <- 1000
       genomeName <- "hg38"
       db.address <- system.file(package="trena", "extdata")
       genome.db.uri    <- paste("sqlite:/", db.address, "vrk2.neighborhood.hg38.gtfAnnotation.db",  sep = "/")
       jaspar.human <- as.list(query(query(MotifDb, "sapiens"),"jaspar2016"))
          # Grab regions for VRK2 using shoulder size of 1000
       trena <- Trena(genomeName)
       tbl.regions <- getProximalPromoter(trena, "VRK2", 1000, 1000)
       hd.filter <- HumanDHSFilter(genomeName, pwmMatchPercentageThreshold = 85,
       geneInfoDatabase.uri = genome.db.uri, regions = tbl.regions, pfms = jaspar.human)
       show(hd.filter)

    ## End(Not run)

[Package trena version 1.16.0 Index]