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Old 12-15-2008, 12:32 PM   #1
AnamikaDarwin
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Question MAQ Scores & Quantify maq alignments?

Hello,

Is there a way to discern how well reads are aligning to a reference assembly using the mapping quality scores?

Thanks,
AnamikaDarwin
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Old 09-18-2015, 11:56 AM   #2
somaye
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Default maq and bwt

hello,is any one help me for learning better maq and bwt alighnment. i want study about it ,but cant finde good sorce for it..
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Old 09-18-2015, 11:25 PM   #3
dpryan
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They have published papers and freely downloadable source code...
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Old 09-19-2015, 01:47 AM   #4
somaye
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do you have a book or ppt about it???
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Old 09-19-2015, 02:01 AM   #5
dpryan
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There won't be a book on things like this. Perhaps you can find a ppt file somewhere (try slideshare).
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Old 09-19-2015, 08:24 AM   #6
GenoMax
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Wikipedia (hopefully accessible from Iran) has good explanation of Burrows-Wheeler transformation: https://en.wikipedia.org/wiki/Burrow...eler_transform

Here is a useful deck of slides about alignments: http://evomicsorg.wpengine.netdna-cd...cture-2-v3.pdf
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