getTopBlat: Function to rank and obtain donor pseudogenes which best...

In Fraternalilab/BrepConvert: BrepConvert: R package for gene conversion analysis of B cell repertoire

Function to rank and obtain donor pseudogenes which best explain a given gene conversion event

Description

Function to rank and obtain donor pseudogenes which best explain a given gene conversion event

Usage

getTopBlat(tb, start, end, ntop = 5, adjustment = TRUE)

Arguments

tb	data.frame storing potential hits (donor pseudogenes) that explain a given gene conversion event generated by running the BLAT program.
start	integer, start site of the gene conversion event.
end	integer, end site of the gene conversion event.
ntop	integer, the number of possibilities to return. (default: 5, i.e. the best 5 candidate donor pseudogenes are returned)
adjustment	boolean, does the boundaries on the donor pseudogene sequence need to be adjusted? (default: TRUE)

Fraternalilab/BrepConvert documentation built on Oct. 14, 2022, 5:54 p.m.