uniqueOrder {ORFik} | R Documentation

## Get unique ordering for GRangesList groups

### Description

This function can be used to calculate unique numerical identifiers for each of the `GRangesList` elements. Elements of `GRangesList` are unique when the `GRanges` inside are not duplicated, so ranges differences matter as well as sorting of the ranges.

### Usage

    uniqueOrder(grl)

### Arguments

`grl` | a `GRangesList`

### Value

an integer vector of indices of unique groups

### See Also

uniqueGroups

Other ORFHelpers: `defineTrailer`, `longestORFs`, `mapToGRanges`, `orfID`, `startCodons`, `startSites`, `stopCodons`, `stopSites`, `txNames`, `uniqueGroups`

### Examples

    gr1 <- GRanges("1", IRanges(1,10), "+")
    gr2 <- GRanges("1", IRanges(20, 30), "+")
    # make a grl with duplicated ORFs (gr1 twice)
    grl <- GRangesList(tx1_1 = gr1, tx2_1 = gr2, tx3_1 = gr1)
    uniqueOrder(grl) # remember ordering

    # example on unique ORFs
    uniqueORFs <- uniqueGroups(grl)
    # now the orfs are unique, let's map back to original set:
    reMappedGrl <- uniqueORFs[uniqueOrder(grl)]

[Package ORFik version 1.4.1 Index]