Adapted to work with non-SNP data? E.g. CpG data?

[swvanderlaan]

Hi,

Would it be possible to edit this package such that it works with Illumina 450K/EPIC analytical outputs? In other words, that it works with a table of p-values associated to CpGs?

Thanks!

Sander

[sahirbhatnagar]

Thanks for your interest in this package.
This package can be used for any type of data that is in a data.frame but must contain at least the following three columns:

• the chromosome number
• genomic base-pair position
• a numeric quantity to plot such as a p-value or zscore

So as long as you have a chromosome number and base position of the CpG site then you can use this package.

See http://sahirbhatnagar.com/manhattanly/#data-pre-processing for details on how to do this.