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-   -   what's clipping point? (http://seqanswers.com/forums/showthread.php?t=1514)

jordi 04-15-2009 03:27 AM

what's clipping point?
 
1 Attachment(s)
Hi!
I'm working with de novo 454 data and , after a GS FLX asemmbly, I try to see the results with clview which works with .ace files and I can see something like the attachment file. The reads have right and left clip. What does it mean? I found anything about this clipping point. Can I change some value in order to improve the assembly?
Thank you very much!

flxlex 05-26-2009 01:47 AM

Reads are quality trimmed before assembly, the new start and stop are the left and right clipping points. Usually, the left (5') side is never trimmed (beyond the first four bases that are common for all reads).

Trim values can be changed using the sfffile command, check the manual.


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