Argument Nreplicates in Circ.filter function

[shannjiang]

Dear Sir or Madam,

I have finished to do circRNA calling by DCC and is trying to use CircTest to perform circRNA filtering.

As shown in the document of the function: Nreplicates: Number of replicates in your data. Expect each group have the same number of replicates. But in my case, there are multiple conditions (> 2) and different replicates among these conditions. How should I set the argument Nreplicates in the Circ.filter function?

thanks,

Shan

[tjakobi]

Dear @shannjiang,

circTest is designed for setups where the replicate number is constant, so the results will probably be not correct. You may try to remove replicates from the other samples to have all conditions with the same number of replicates.

Cheers,
Tobias