Scripture visualisation tool help please

seq_newbie · 06-14-2011, 07:31 AM

Hi,

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.

Regards

Kevin

Joker!sAce · 08-07-2011, 04:03 AM

Hi,

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 (http://molecularevolution.org/resour...pture_activity) 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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06-14-2011, 07:31 AM	#1
seq_newbie Member Location: Ireland Join Date: Jun 2011 Posts: 14	Scripture visualisation tool help please Hi, 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. Regards Kevin

08-07-2011, 04:03 AM	#2
Joker!sAce Member Location: Denmark Join Date: Feb 2011 Posts: 21	Hi, 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 (http://molecularevolution.org/resour...pture_activity) does the trick. I'm working on it now and am not sure if it actually works well. Best of luck!