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06-19-2010, 04:48 AM
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#1 |
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Junior Member
Location: India Join Date: Jun 2010
Posts: 5
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Difference between mate pair and pair end
Hi All,
i am confused between two terminology Mate paired and Pair end. Please help me out on this. Thanks |
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06-19-2010, 05:25 AM
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#2 |
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Member
Location: India Join Date: Jun 2010
Posts: 20
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Even i have a doubt regarding 'mate-pair inner distance' parameter option -r which is essential to give while running tophat with pair-ends.
Can someone help me how to determine the mate-inner-dist (-r) if i know the reads size but not the fragment size. For example if my reads length (paired-reads) is of length 50 bp and in another set the reads length (paired-reads) is 45 bp. |
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06-19-2010, 07:13 AM
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#3 | |
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Senior Member
Location: USA, Midwest Join Date: May 2008
Posts: 1,178
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| Tags |
| matepair, ngs, pair end |
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