Subtract one data frame from another based on chromosome, start and end.

Source: R/subtract.R

Subtract one data frame from another based on chromosome, start and end.

genome_subtract(x, y, by = NULL)

Arguments

x

A dataframe.
y

A dataframe.
by

A character vector with 3 entries which are used to match the chromosome, start and end column. For example: by=c("Chromosome"="chr", "Start"="start", "End"="end")

Value

The subtracted dataframe of x and y with the new boundaries.

Examples


library(dplyr)

x1 <- data.frame(id = 1:4, bla=letters[1:4],
                 chromosome = c("chr1", "chr1", "chr2", "chr1"),
                 start = c(100, 200, 300, 400),
                 end = c(150, 250, 350, 450))

x2 <- data.frame(id = 1:4, BLA=LETTERS[1:4],
                 chromosome = c("chr1", "chr2", "chr1", "chr1"),
                 start = c(120, 210, 300, 400),
                 end = c(125, 240, 320, 415))

j <- genome_subtract(x1, x2, by=c("chromosome", "start", "end"))
print(j)
#>   id bla chromosome start end
#> 1  1   a       chr1   100 119
#> 2  1   a       chr1   126 150
#> 3  2   b       chr1   200 250
#> 4  3   c       chr2   300 350
#> 5  4   d       chr1   416 450