Hello Gael, Thank you for your suggestion regarding the Genome Graphs tool and assemblies which aren't exclusively "chr*". Our developers are looking into whether this tool can be modified to be useful for more assemblies. I will contact you when there is resolution on this matter.
Meanwhile, you could try creating a custom track of your data and viewing this data one chromosome at a time, in the Genome Browser. Please don't hesitate to contact us again if you require further assistance. Kayla Smith UCSC Genome Bioinformatics Group ----- Original Message ----- From: "Gael Cristofari" <[email protected]> To: [email protected] Sent: Wednesday, March 11, 2009 10:21:37 AM GMT -08:00 US/Canada Pacific Subject: [Genome] Genome Graphs Dear all, I'm trying to use the Genome Graphs tool with the Medaka genome, but I get the following error message: 'Sorry, can only do genome layout on assemblies mapped to chromosomes. This one has 7189 contigs. Please select another organism or assembly.' The same message is obtained with the genome assemblies of several other species. I don't understand why I get this answer although the Medaka genome is assembled to chromosome level, which can be visualized in details otherwise in the Genome Browser. If not possible in Genome Graphs, is there any other easy way to plot values on chromosome coordinates? Thank you in advance for your help Best -- ________________________________________________________ Gael Cristofari, PhD, CR1, HDR INSERM U758 - Human Virology Department Ecole Normale Superieure de Lyon 46, allee d'Italie F-69364 LYON FRANCE Phone: +33 (0)4 72 72 86 96 E-mail: [email protected] http://www.ens-lyon.fr http://hvd.ens-lyon.fr/human_virology_dpt/teams/gs_lr/pr_lr/endogenous-retroelement-host-interactions-g-cristofari?set_language=en _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
