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Hi Scott
I never used megablast so what i am writing is true of just any
fasta file (so if there is anything quirky in megablast that i
dont know about, apologies!):
- Take your fasta file and convert to tabular (under "fasta
manipulation" - this will make it go to one line per record).
- Then randomly choose whatever number of reads you want using
"select random lines from a file" under the text maniupulation
tab.
- Then convert the tabular file back to fasta. (under the fasta
manipulation tab)
noa
On 16/02/2012 19:31, Scott Tighe wrote:
Hi all
When using Galaxy megablast, is there a simple way to reduce my
FASTA files from 23 million reads to 1/2 that size and submit to
megablast separately?
Thanks
--
Scott Tighe
Advanced Genome Technology Lab
Vermont Cancer Center at the University of Vermont
149 Beaumont Avenue
Health Science Research Bd RM 305
Burlington Vermont USA 05405
lab 802-656-AGTC (2482)
cell 802-999-6666
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___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
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