Question: DiffBind package showing warnings and unable to analyse my data
gravatar for chaudharyc61
16 months ago by
chaudharyc6130 wrote:

Hello everyone

I am using DiffBind Bio-conductor for differential binding analysis. I have four replicates of same experiment so the Condition column is same for all the replicates, while getting the contrast in R (i.e My_data <- dba.contrat(My_data, categories = DBA_CONDITION) ) I am getting warning :

Warning message: No contrasts added. Perhaps try more categories, or lower value for minMembers.

I tried changing minMemebers and also the categories but still the same error is coming. Please Help

Thank you...

chip-seq diffbind • 776 views
ADD COMMENTlink modified 16 months ago by Rory Stark880 • written 16 months ago by chaudharyc6130
gravatar for Rory Stark
16 months ago by
Rory Stark880
University of Cambridge, Cancer Research UK - Cambridge Institute
Rory Stark880 wrote:

What are the sample groups that you are trying to find the difference between? If all four samples are replicates of the same sample type, there is nothing to contrast.

Another way to look at this: if all the samples have the same values for the Condition, what other attribute (Tissue, Factor, Treatment) do they have different values for?

ADD COMMENTlink written 16 months ago by Rory Stark880
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