README.md

In antonio-mora/vennRanges: Venn Diagrams of Genomic Ranges

vennRanges

"vennRanges" is an R package to build venn diagrams between dataframes of genomic ranges (bed format).

Fast tutorial

Step 1.

Upload your bed files into R dataframes, or use the generate_random_genomic_range function:

library(vennRanges)
a <- generate_random_genomic_range()
b <- generate_random_genomic_range()
c <- generate_random_genomic_range()
d <- generate_random_genomic_range()

Here we have generated four genomic range files with the default parameters of the function (see: ?generate_random_genomic_range).

head(a)
head(b)
head(c)
head(d)

Step 2.

We can use the full_range_comparison function to check the intersection, union and differences between two files, and how intersection between A and B can be different to the intersection between B and A.

ab_comparison <- full_range_comparison(a, b)
lapply(ab_comparison, dim)

Step 3.

We can use the draw_2_venn, draw_3_venn, and draw_4_venn functions to build the diagrams.

draw_2_venn(a, b)
x11(); draw_3_venn(a, b, c, "A", "B", "C", "gray", "purple", "pink")
x11(); draw_4_venn(a, b, c, d, "A", "B", "C", "D", "green", "purple", "red", "yellow", 'raw', 1)

See the help files for more options.

antonio-mora/vennRanges documentation built on May 10, 2019, 12:26 p.m.