add_pseudo_5utrs_txdb_if_needed: add_pseudo_5utrs_txdb_if_needed

In JokingHero/ORFik: Open Reading Frames in Genomics

add_pseudo_5utrs_txdb_if_needed

Description

add_pseudo_5utrs_txdb_if_needed

Usage

add_pseudo_5utrs_txdb_if_needed(
  txdb,
  pseudo_5UTRS_if_needed = NULL,
  minimum_5UTR_percentage = 30
)

Arguments

txdb	a TxDb object
pseudo_5UTRS_if_needed	integer, default NULL. If defined > 0, will add pseudo 5' UTRs of maximum this length if 'minimum_5UTR_percentage" (default 30 mRNAs (coding transcripts) do not have a leader. (NULL and 0 are both the ignore command)
minimum_5UTR_percentage	numeric, default 30. What minimum percentage of mRNAs most have a 5' UTRs (leaders), to not do the pseudo_UTR addition. If percentage is higher, addition is ignored, set to 101 to always do it.

Value

txdb (new txdb if it was done, old if not)

JokingHero/ORFik documentation built on Dec. 21, 2024, 12:01 a.m.