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Old 04-01-2014, 06:43 PM   #1
susanklein
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Location: oceania

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Default MIRA on 454 data

Hi,

anyone used MIRA? Can't find the answer to this in the manual or online...

I need to filter some 454 paired read data before assembly, using a custom blastdb. That part I have working ok. I've used sff_extract.py to get a fastq and trace_info.xml file for input to MIRA, which I am assembling minus filtering. But, what I need to know is, if I filter the reads, thus loosing the traceinfo.xml file, will MIRA still do the proper clipping of the fastq (remove lower case sequences?)?

Thanks for any help, I have posted this to the mira list but thought I'd ask here too just in case anyone knew..

S.
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Old 04-02-2014, 06:24 AM   #2
TiborNagy
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As far as I know, Mira does not read trace_info.xml and will clipping the input fastq.
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