Re: [Artemis-users] Command line options to load BAM files and zoom to a gene

Hi Tim, This works like a charm. But, that makes me want more. Sorry about that. - Is there a way we can set the default bam view option to "Coverage Plot colors" ? So that we see pile up of reads. Or via command line option? I know i'm asking for too much here Thanks very much, Gowtham

Re: [Artemis-users] Command line options to load BAM files and zoom to a gene

Hi Torsten Yes this is already available: It is possible to add user plots from the command line using the JVM userplot option, e.g. art -Duserplot=/pathToFile/userPlot and for multiple plots this is comma separated art -Duserplot='/pathToFile/userPlot1,/pathToFile/userPlot2', it can also