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Old 06-14-2011, 07:31 AM   #1
Location: Ireland

Join Date: Jun 2011
Posts: 14
Default Scripture visualisation tool help please


I have followed the walkthrough and got a '.bed' and a '.dot' file. However, when I try to view the .bed file with IGV it appears to be showing the entire chromosome rather than the region specified wth -start and -end. Has anyone noticed this and found a solution? If so please respond with how you resolved it.


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Old 08-07-2011, 04:03 AM   #2
Location: Denmark

Join Date: Feb 2011
Posts: 21


I have the same troubles. If you use SAMtools anywhere, your output will be wrong. There are many more unresolved issues too.

I was told that this ( does the trick. I'm working on it now and am not sure if it actually works well.

Best of luck!
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