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As far as I know, Mira does not read trace_info.xml and will clipping the input fastq. -
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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