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Forum: De novo discovery 02-16-2009, 05:49 AM
Replies: 11
Views: 5,000
Posted By JDL
mark, There are no quality files or so...

mark,

There are no quality files or so needed to go with the sequences?
Each sequence is considered to be of the same quality?

JDL
Forum: De novo discovery 02-11-2009, 11:41 PM
Replies: 11
Views: 5,000
Posted By JDL
used assemblers

Thank you for your commands

We don't have the sequencers ourself so the first assemblies are made by the sequencing companies.

The Solexa reads (5 pooled BAC's (contig)) are assembled with...
Forum: De novo discovery 02-10-2009, 12:42 AM
Replies: 11
Views: 5,000
Posted By JDL
De Novo plant Bac sequencing

We have sequenced a stretch of overlapping plant Bac's with both Solexa and 454.

Can anyone give me advice which assembler to use to get nice big contigs?

So far we get only small contigs.
...
Forum: Bioinformatics 05-16-2008, 08:00 AM
Replies: 4
Views: 4,235
Posted By JDL
Solexa data to fasta

For the EULER-SR program a read.fasta file is needed with all the short reads of the solexa run in fasta format.

Does anyone have a small script or program to do so?

Thanks,
JD
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