Forum: Bioinformatics
04-02-2009, 12:48 PM
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Replies: 65
Views: 39,224
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Forum: Bioinformatics
04-01-2009, 05:07 AM
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Replies: 65
Views: 39,224
Stegger
One thing different in the new...
Stegger
One thing different in the new release is that there is no longer a minimum contig length of 200 bases ... strangely enough I am now getting "contigs" in de novo assembly of 36 bases ......
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Forum: Bioinformatics
04-01-2009, 04:42 AM
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Replies: 236
Views: 670,883
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Forum: Bioinformatics
03-31-2009, 08:30 AM
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Replies: 65
Views: 39,224
opinions on CLC Genomics Workbench
ECO et al.
The CLC Genomics Workbench has been available for over a year and I notice that many people signed up to test it ... have people continued to use it (paying customers)? any opinions on...
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Forum: De novo discovery
03-27-2009, 02:19 PM
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Replies: 18
Views: 9,618
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Forum: Bioinformatics
03-14-2009, 07:49 AM
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Replies: 236
Views: 670,883
thanks swbarnes2
i think i will post a query...
thanks swbarnes2
i think i will post a query on the UCSC listserver
genome@soe.ucsc.edu
and see if someone like Jim Kent is thinking about some utility that could facilitate reference assembly...
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Forum: Bioinformatics
03-12-2009, 06:22 PM
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Replies: 236
Views: 670,883
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Forum: Bioinformatics
03-12-2009, 09:46 AM
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Replies: 236
Views: 670,883
Staden GAP5
i note that there is no active link in the posting
* STADEN - Includes GAP4. GAP5 once completed will handle next-gen sequencing data. A partially implemented test version is available here
...
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Forum: SOLiD
03-11-2009, 10:53 AM
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Replies: 22
Views: 44,662
Roald
I am using CLC Genomics Workbench 3...
Roald
I am using CLC Genomics Workbench 3 ... is this already outdated considering your posting here:
"We have just included native color space assembly in our NGS Cell software"
... I have...
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Forum: Bioinformatics
02-21-2009, 04:01 AM
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Replies: 3
Views: 2,347
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Forum: Bioinformatics
02-20-2009, 01:22 PM
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Replies: 3
Views: 2,347
long repeated elements in a bacterial genome
if there are say 20 (almost) identical transposons of say 800 bases in a 6 Mbase genome, is there any way an assembler can properly position them using only single reads of 36 bases? and what to...
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Forum: Bioinformatics
01-23-2009, 12:10 PM
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Replies: 236
Views: 670,883
likewise there is no download available on the...
likewise there is no download available on the main page
http://www.broad.mit.edu/science/programs/genome-biology/computational-rd/computational-research-and-development
though they state that it...
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Forum: Site Announcements
01-15-2009, 08:29 AM
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Replies: 9
Views: 6,064
ECO
i dont see much "bio" in the...
ECO
i dont see much "bio" in the bioinformatics forum ... mostly still questions about how to assemble DNA ... i did see a post from bioinfosm from almost a year ago!
1/17/08
"Just wanted to...
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Forum: Site Announcements
01-15-2009, 08:28 AM
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Replies: 9
Views: 6,064
ECO
i dont see much "bio" in the...
ECO
i dont see much "bio" in the bioinformatics forum ... mostly still questions about how to assemble DNA ... i did see a post from bioinfosm from almost a year ago!
1/17/08
"Just wanted to...
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Forum: Site Announcements
01-14-2009, 07:32 AM
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Replies: 9
Views: 6,064
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Forum: Bioinformatics
07-07-2008, 03:37 PM
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Replies: 236
Views: 670,883
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Forum: Introductions
05-13-2008, 09:01 AM
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Replies: 11
Views: 4,549
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Forum: Bioinformatics
05-13-2008, 08:47 AM
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Replies: 2
Views: 5,061
at least some core facility support dont...
at least some core facility support dont understand the value of the prb files ... after thinking about doing what you did, i decided it didnt make sense to try to reverse-engineer the prb scores ......
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Forum: Bioinformatics
05-03-2008, 09:13 AM
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Replies: 22
Views: 36,662
yuchang ::AT:: genomics.org.cn
ECO
kind fellow in canada sent me a tar file with the SOAP software with apologies for inconvenience accessing site ... will let you know what i find ... thanks for list of links
rudy
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Forum: Bioinformatics
05-03-2008, 07:45 AM
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Replies: 22
Views: 36,662
cant find SOAP site in canada
this program is supposed to be available at
http://soap.genomics.org.cn
but cant access the site
i was handed a file for a resequencing project for a microcystis strain that doesnt produce...
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