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Old 09-12-2008, 05:53 AM   #1
fadista
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Location: Malmö

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Default export from MAQ to EagleViewer

Hi,

I would like to know if someone has tried to export a MAQ map file to be able to see it on the EagleViewer (http://bioinformatics.bc.edu/marthlab/EagleView)
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Old 09-28-2008, 01:24 PM   #2
myrna
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Default maqview

Why not just use maqview?

http://maq.sourceforge.net/maqview.shtml
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Old 10-10-2008, 07:14 AM   #3
xuer
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Location: germany

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Default

yes, i also have a problem with maqview. Maqview depends on OpenGl, which looks hard to install on my machine.

anybody know where to download and to install OpenGL?

Thanks!
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Old 01-30-2009, 01:13 PM   #4
Vince_Funari
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Location: Los Angeles

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Default Eagle view?

I would also like to know about this. I have paired end data and have been using maq succusfully but looking for a good viewer to support the alignments.

Maqview in theory would be great, but its difficult to build and their are compatibility problems with the new O.7.1.

But on a seperate but parrellel note, viewing the post-processed filtered alignments locally for the end user is many times perferable on a PC. As the GUI interface through Xterm isnt always possible or perferred.

Anyway, many people are having problems with maqview install not the utility or output of maqview but its installation and compatibility. I think its dependence on OPENGL has greated problems for us and others to install and there are problems using it with the latest maqview .maps.

Eagleview or Maqview would be a great complement to this system!

Quote:
Originally Posted by fadista View Post
Hi,

I would like to know if someone has tried to export a MAQ map file to be able to see it on the EagleViewer (http://bioinformatics.bc.edu/marthlab/EagleView)
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Old 02-18-2009, 09:43 AM   #5
bioinfosm
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I tried eagleview last year, but ran into problems and never got them to fix!

Anyone else having experience with viewing maq alignments efficiently, and for free
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Old 02-18-2009, 09:52 AM   #6
myrna
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Default tview

The tview alignment viewer is very simplistic but I have found it better than maqview (it comes as part of samtools). You can convert a maq alignment to a binary SAM file using the maq2sam-long binary that comes with samtools.

Ryan

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Originally Posted by bioinfosm View Post
I tried eagleview last year, but ran into problems and never got them to fix!

Anyone else having experience with viewing maq alignments efficiently, and for free
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