As far as I remember MIRA....isn't MIRA taking into account the low/high 
quality bases anyway? So no need to filter there right?
Only filtering needed is for contaminating sequences.....(incl adapters and 
such). You can/have to check the MIRA website to be sure though.

The high qual segments I have used as in the metagenomics example but indeed 
you loose the exact qual info....but that is already above the provided 
threshold (default above 20 in Sanger quality score range).


Van: galaxy-user-boun...@lists.bx.psu.edu 
[mailto:galaxy-user-boun...@lists.bx.psu.edu] Namens Aaron Jex
Verzonden: dinsdag 24 mei 2011 1:40
Aan: galaxy-u...@bx.psu.edu
Onderwerp: [galaxy-user] (no subject)


Can't seem to find an answer to this on your wiki site and it's not in the 
tutorial.  I would like to filter my 454 reads for high quality regions, rename 
the resulting sequence fragments AND relink the new reads (fragments) to the 
original quality data so that I can take these filtered reads and assembly them 
using MIRA. Is there a way to do this with Galaxy?  So basically all I want to 
do is take the new read fragments I get from converting the tabular file to the 
fasta file as shown in your metagenomics tutorial, and generate a corresponding 
qual file for these 'new' reads.

Best regards,

Aaron Jex, BSc, PhD
Senior Research Officer,
Department of Veterinary Science,
The University of Melbourne,
250 Princes Highway,
Werribee, Victoria,
tel: +61 3 9731 2294
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