add.chr.len.anno: cumulative chromosome lengths

In matthiasheinig/eQTLpipeline: A package to facilitate the full pipeline of cis eQTL analysis

Description

convenience function to get cumulative chromosome lengths for manhattan plots

Usage

add.chr.len.anno(build = "b37", df = NULL, build.names = NULL)

Arguments

build	genome build to use, options: 'b37' for GRCh37.p13, 'b38' for GRCh38.p10, 'custom' (default 'b37')
df	data.frame containing custom annotations (default NULL)
build.names	names for colums with annotations for custom build, order: chromosome (chr), length (pos) (default NULL) "

Value

data frame with columns "chr", "chrLen", "cumSum2", "cumSum", "tick" and one row for each chr value, in ascending order chr = chromosome id, chrLen = length of the chromosome, cumSum2 = cumulative sum of chromosome lengths, cumSum = cumulative sum of chromosome lengths (starting at 0), tick = positions that indicate the middle of each chromosome (for axis label)

Author(s)

Ines Assum (2019-03-21)

matthiasheinig/eQTLpipeline documentation built on May 21, 2019, 1:16 p.m.