filterWhippetEvents {GeneStructureTools} | R Documentation

## Filter out significant events from a whippet diff comparison

### Description

Filter out significant events from a whippet diff comparison

### Usage

    filterWhippetEvents(whippetDataSet, probability = 0.95, psiDelta = 0.1,
      eventTypes = "all", idList = NA, minCounts = NA, medianCounts = NA,
      sampleTable)

### Arguments

`whippetDataSet` | whippetDataSet generated from `readWhippetDataSet()`
`probability` | minimum probability required to call event as significant
`psiDelta` | minimum change in psi required to call an event as significant
`eventTypes` | which event type to filter for? default = `"all"`
`idList` | (optional) list of gene ids to filter for
`minCounts` | minumum number of counts for all replicates in at least one condition to call an event as significant
`medianCounts` | median count for all replicates in at least one condition to call an event as significant
`sampleTable` | data.frame with sample names and conditions. Only needed if filtering with counts.

### Value

filtered whippet differential comparison data.frame

### Author(s)

Beth Signal

### See Also

Other whippet data processing: `coordinates`, `diffSplicingResults`, `formatWhippetEvents`, `junctions`, `readCounts`, `readWhippetDIFFfiles`, `readWhippetDataSet`, `readWhippetJNCfiles`, `readWhippetPSIfiles`, `whippetTranscriptChangeSummary`

### Examples

    whippetFiles <- system.file("extdata","whippet/",
    package = "GeneStructureTools")
    wds <- readWhippetDataSet(whippetFiles)
    wds <- filterWhippetEvents(wds)

[Package GeneStructureTools version 1.4.0 Index]