Question: MethylPipe pvalue output
0
gravatar for 746458071
3.1 years ago by
7464580710
7464580710 wrote:

I'm using BSprepare function in R package MethylPipe to perform binomial test. The paper says "The resulting multiple-testing corrected p-values are stored on the disk in the Tabix compressed and indexed file, and are available in methylPipe through the BSdata class. "

 I wonder how to get the original pvalue of binomial test (not multiple-testing corrected).

Thank you so much.

methylpipe • 408 views
ADD COMMENTlink modified 3.1 years ago by kamal.fartiyal8410 • written 3.1 years ago by 7464580710
Answer: MethylPipe pvalue output
0
gravatar for kamal.fartiyal84
3.1 years ago by
Cancer Research UK Cambridge Institute
kamal.fartiyal8410 wrote:

Hi,

Its not possible to get the original p-value at present as they are corrected for multiple-testing as soon as they are generated and this process is not optional in the present implementation of the software. To get the original p-values, the BSprepare function code need to be modified.

Thanks.

Kamal

 

ADD COMMENTlink written 3.1 years ago by kamal.fartiyal8410

Hi Kamal,

Thank you for your answers.

I want to get the original p-values because the input data is so big (about  20G) that I split it to speed up. When I combined the result of every part , the output corrected p-values is not right. Do you have any other suggestions for me or is there a paramete for BSprepare() to speed up?

Thanks.

 

ADD REPLYlink written 3.1 years ago by 7464580710
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 419 users visited in the last hour