R circlize package problem with drawing histogram
Entering edit mode
marvel479 • 0
Last seen 4.1 years ago

Forgive my confusion, but I can't figure out the correct usage of circlize package to draw a histogram. I want to draw a histogram for one of its tracks and would like to use my read counts for Y-axis, and the x should be the genomic position, however wide or narrow. The syntax however is:

circos.trackHist(factors, x, ....)

that doesn't work though. How should I imply that my x should have chromosome no., start and stop position information, the bin height being no. of reads, for each row?

I am assuming I can write:

circos.trackHist(factors = mydataframe$reads, x = x)

This is what my file looks like: head(dataframe)

Chrom Start End Reads 1 chr1 42938268 42938392 2 2 chr1 63224349 63225050 2 3 chr1 71646172 71646228 2 4 chr1 72904979 72905055 2 5 chr1 138065763 138065817 2 6 chr1 164635940 164635994 2

circlize R Circos Plots • 844 views
Entering edit mode

Just linking these up: https://www.biostars.org/p/429801/


Login before adding your answer.

Traffic: 514 users visited in the last hour
Help About
Access RSS

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6