MakeData: Generate input data for tornado plot

In chenhong-dkfz/tornado.test.1: Tornado Plot for CNV

Description

Generate input data for tornado plot

Usage

MakeData(CNV, gene_name_1, gene_name_2, score.type, max.length,
  score.method, cohort_thredshold, gene_score_1, gene_score_2)

Arguments

CNV	data frame with six columns,Chromosome,Start,End,Score,Gene,Cohort,PID
gene_name_1	character, the name of first gene
gene_name_2	character, the name of second gene
CNV	data frame with six columns,Chromosome,Start,End,Score,Gene,Cohort,PID
start_1	numeric, start point of the first gene
start_2	numeric, start point of the second gene
end_1	numeric, end point of the first gene
end_2	numeric, end point of the second gene
chrom	character, chromosome id of both genes
type	character, "dup" for all amplifications, "del" for all deletions. default none.

Examples

sdt <- MakeData(CNV=chr17,gene_name_1 = input_gene_1,score.type = "del")
where sdt is the intermediate file for TornadoPlot function

chenhong-dkfz/tornado.test.1 documentation built on Dec. 28, 2021, 7:28 p.m.