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Old 11-25-2009, 12:14 PM   #1
dukevn
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Default TopHat - wig file not compatible with UCSC?

Hi all,

I tried TopHat (http://tophat.cbcb.umd.edu/) and got outputs including both bed and wig files. With custom track on UCSC, junctions.bed was loaded without any problem. But when I tried with coverage.wig file, I always got error:

Error File 'coverage.wig' - Error line 2003840 of custom track: chromEnd less than 1 (0)

Anybody sees this error before?

Thanks,

D.
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Old 11-25-2009, 01:59 PM   #2
HTS
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Yes, I got the same error and have reported the bug to Cole Trapnell. Try to look for the line says "chrM 0 0 0" and delete it, and it should solve the problem (at least it works in my case).

-- Leo
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Old 11-30-2009, 07:37 AM   #3
Kasycas
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Default same problem

Hi,

I have the same problem. Did Leo's solution work for you dukevn?

Thanks!
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Old 11-30-2009, 07:53 AM   #4
dukevn
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Quote:
Originally Posted by Kasycas View Post
Hi,

I have the same problem. Did Leo's solution work for you dukevn?

Thanks!
Yes, it worked for me as well. Thanks for your temp solution Leo.

D.
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