findCompatibleEvents

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Description

Which transcript contains the event? Each event has 2 possibilities, as long as the transcript fulfills one, it passes the test Has to be exact (inner junctions)

Usage

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findCompatibleEvents(tx, tx2 = NULL, roi, sequential = TRUE,
  verbose = FALSE)

Arguments

tx

GRangesList object of transcripts

tx2

optional GRangesList object of transcripts if tx is list of cds

roi

makeROI object contaning event information

sequential

logical. Exons have to appear sequentially to be considered compatible

verbose

logical. printouts and messages.

Details

Seperates into event/region1 and 2 for the alternative case

Value

list of length 4
(1) GRangesList
(2) Hits status [c]=coding; [nc]=non-coding
(3) ct - compatible transcripts
(4) tt - total transcripts

Author(s)

Diana Low

Examples

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