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Search: Posts Made By: dmamartin
Forum: Bioinformatics 04-21-2009, 07:15 AM
Replies: 0
Views: 656
Posted By dmamartin
AMOS extractContig woes

I've performed an assembly using Velvet then converted the velvet_asm file to a bank with bank-transact.

Loading all the contigs up in hawkeye gets me no brownie points with my sysadmin, so I have...
Forum: Bioinformatics 10-26-2008, 01:00 AM
Replies: 511
Views: 128,470
Posted By dmamartin
We'll see what we can do. Having no need in the...

We'll see what we can do. Having no need in the immediate future to rerun the analysis it may take a short while to get around to it, but we will definitely add it to the bench mark test one of my...
Forum: Bioinformatics 10-24-2008, 12:05 AM
Replies: 511
Views: 128,470
Posted By dmamartin
That is with --best -k 100, not the most speedy...

That is with --best -k 100, not the most speedy of searches.
Forum: Bioinformatics 10-24-2008, 12:04 AM
Replies: 511
Views: 128,470
Posted By dmamartin
OK, so I have downloaded ZOOM this week having...

OK, so I have downloaded ZOOM this week having seen the paper in Bioinformatics and found that for my purposes it is much faster than vmatch.
I rewrite my scripts and start data processing and then...
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