plotGeneStructure: plotGeneStructure

In ZhangRenL/quickHapR: R Packages for Gene Haplotype Analysis

plotGeneStructure

Description

plotGeneStructure

Usage

plotGeneStructure(gff, hapResult,
Chr,
startPOS, endPOS,
type = "pin", cex = 0.7,
CDS_h = 0.05, fiveUTR_h = 0.02, threeUTR_h = 0.01)

Arguments

gff	gff
hapResult	ouput of hap_result(), a data.frame consistant with 4 metarows: Chr, POS, Allele and ANN, and each genotype of each hap
Chr	Chr, it will use the first Chr in the meta rows by defalt
startPOS	If missing, will use the min position in the second meta rows by defalt
endPOS	If missing, will use the max position in the second meta rows by defalt
type	character. Could be circle, pie, pin, pie.stack or flag
cex	cex will control the size of circle.
CDS_h, fiveUTR_h, threeUTR_h	The height of CDS 5'UTR and 3'UTR

Examples

data("quickHap_test")
hap <- get_hap(vcf,hyb_remove = TRUE, na.drop = TRUE)
hapResult <- hap_result(hap)
plotGeneStructure(gff, hapResult,
                  startPOS = 4100,
                  endPOS = 8210,
                  cex = 0.75)

ZhangRenL/quickHapR documentation built on June 17, 2022, 12:04 a.m.