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Old 09-11-2012, 08:05 AM   #1
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Default dwgsim illumina mate pairs

Hi there,

I want to simulate Illumina mate pairs and thought of using dwgsim.
However, the manual states that it will create mate pairs, that have --> --> orientation, whereas Illumina mate pairs should have <-- --> orientation.
Am I wrong, or does dwgsim simulate only 454 and Solid mate pairs?

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Old 09-12-2012, 03:02 PM   #2
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No, it can do Illumina format Fastas. Remember that with dwgsim you won't get any simulated quality info though
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Old 09-14-2012, 12:51 AM   #3
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It worked fine for paired-end reads, but not for the mate pairs.
Reverse complementing the first read should do the trick though. For the quality string, I just replaced the default quality string with the values from an average fastqc evaluation.
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dwgsim, illumina, mate pairs, simulation

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