Circular genome viewing capability
2012-08-03 18:57:41 GMT
We are interested in a genome browser that provides the option to display genomes both linearly and circularly and it appears that the patch https://github.com/GMOD/GBrowse/tree/nliles_gbrowse_circular allows you to do just that. However in reading your FAQ at http://gmod.org/wiki/GBrowse_FAQ#How_do_I_show_circular_genomes.3F,
>How do I show circular genomes?
>A patch is currently being developed to display circular genomes. You can git clone the branch code athttps://github.com/GMOD/GBrowse/tree/nliles_gbrowse_circular. >The patch will display basic glyphs, but has problems showing sequences. To implement the patch, you must add the tag region=circular; to column 9 of the first line of >the gff file.
it appears that we cannot view sequences. Can you let me know what functionalities the circular genome viewer provides among those provided by the linear view? If there are applications that you know have implemented this and are publicly available, can you point me to them?
Thanks very much for your help,
Sandhya Xirasagar, Ph.D.
Project Manager, Bioinformatics and Computational Biosciences Branch (BCBB)
Office of Cyber Infrastructure and Computational Biology (OCICB)
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Bethesda, MD 20892
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