Hi I am tryin to use gatk AnalyzeCovariates and compare outpıuts of 2 pass using folloging code:
gatk AnalyzeCovariates --before-report-file sample_addRG.recal_pass1.tabl --after-report-file sample_addRG.recal_pass2.tabl --plots-report-file sample.output.pdf
But it gives following error. I tried so many ways but still taking the same error. So please help me.
Stdout: Stderr: Attaching package: ‘gplots’
The following object is masked from ‘package:stats’: lowess Hata: Can't find `stat` called "identity"