Hi i was trying to running example code of PureCN, but i got two error:

1. I did not find any function called "createTargetWeights" after installing PureCN.

2. While running "runAbsoluteCN" of section 5 after running all the previous commands i got this error:

object 'gatk.tumor.file' not found

Can you please help me with this.

Thanks,

Rahul

Hi Rahul,

is it possible you are following the documentation of the developer version with an installation of the stable version? We cleaned up the API in the new version.

Can you post the output of sessionInfo() and the code you were actually running? If sessionInfo() lists PureCN 1.0.4, I would recommend upgrading to PureCN 1.1.56 (it works fine with Bionconductor 3.3). It will become the new stable in a couple of days and is vastly improved over 1.0.4.

Best,

Markus