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Old 09-29-2009, 06:31 PM   #1
edge
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Location: China

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Default Instructions for scaffolding MIRA 454 contigs & 25 KB paired-end data with BAMBUS

Regarding this paper and the command from this paper:
sff_extract -l ../paired_end_adaptor.fasta F04Y2AI01.sff -i "insert_size:
25000,insert_stdev:9000" -o non_0157

How to get the paired_end_adaptor.fasta file?
How to determine the insert_size and insert_stdev?
Anybody can provide suitable links or sources to solve this two problem?
Thanks a lot
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Old 09-30-2009, 01:04 AM   #2
maubp
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You could ask on the MIRA mailing list - or at least search their archives,
http://www.freelists.org/archive/mira_talk
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