Tools available for analyzing the methylation dataset for Human DNA Methylation 3x720

[daanum]

Hi,

I am unable to find a link to start a new thread so I am posting my question here, sorry.

I am working with Nimblegen DNA methylation datasets. Can any one please help with any tools available for analyzing the methylation dataset for Human DNA Methylation 3x720K CpG Island Plus RefSeq Promoter Arrays (Roche Nimblegen, Madison, WI, USA) please?
The dataset that I would like to analyze is the following:

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE57971

I tried charm or MEDEP but the documentation is not very user friendly. Any quick help will be much appreciated.

Thanks for your time and help.

[SequencingJelly]

Hi daanum,

I'd prefer to reply by PM. Can you enable the email function in seqanswers?

-SJ

[GenoMax]

@daanum: I have moved your question to a new thread.

For future reference here is how you create new threads:

SeqAnswers.com --> Select Forums option on left --> Choose Appropriate forum --> "New Thread" button at top left of the page (after you select the forum you want to post in).

[daanum]

Thanks Genomax. I will follow up in the new thread.

Thanks SJ. PM settings are already enabled in my account. Could you please email me the suggestions in a new thread that Genomax has created ?

Thanks for your help.

[GenoMax]

@daanum: You are already in the new thread. Your post was moved here.

[daanum]

Thanks Genomax.

Hi SJ,

Sorry for the confusion, please post your reply in this thread (if you still can't PM me)
Thanks.