Hello,
I wanted to compare the methylation data generated in a study by both 450k array and MeDip-seq techniques. The file formats of both differ. The array data is in a txt file with CpG island number and its methylation percentage. The Medip seq data is in BED format with chromosome coverage and the corresponding methylation content. I am new to this field and not sure how to compare both as they both have different column values.
Here are the files:
Medip seq : http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1278651
Array : http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1282779
Can anyone see how it would be possible to compare the two?
Thank you.
could you elaborate a little on what you mean for "compare"? you mean one is the control (i.e. 450k) and the other one your condition (i.e. MeDip) and you want to see the changes between the two?
what's you goal? what would you like to find out with the data?
Both the data are from the same individual and highlight the methylation content. One has cg probes while the other one has chromosome number.
I want to do a comparison between data generated from 2 techniques and see the correlation of methylation percentage. How much they match or differ.
My concern is how to find chromosome or genome location of the CpG probe in txt file?