Changes

For information on the VerifyBamID output, see: [[Understanding VerifyBamID output]]  

For information on the VerifyBamID output, see: [[Understanding VerifyBamID output]]  

For information on the QPLOT output, see: [[Understanding QPLOT output]]  

For information on the QPLOT output, see: [[Understanding QPLOT output]]  

Note: the tutorial does not produce a target directory, but if you run with targeted data, you may see that.

Note: the tutorial does not produce a target directory, but if you run with targeted data, you may see that.

When you run on your own data, that is more than just chromosome 20, you will need to use the full reference files.  Full Reference files can be downloaded from [[GotCloudReference]].  If you are using these reference files, you will only need to specify REF_DIR in your configuration file to the full path to where they are installed.

When you run on your own data, that is more than just chromosome 20, you will need to use the full reference files.  Full Reference files can be downloaded from [[GotCloudReference]].  If you are using these reference files, you will only need to specify REF_DIR in your configuration file to the full path to where they are installed.