Forum: Open Genomics Engine Project
04-29-2013, 01:56 PM
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Replies: 15
Views: 62,780
It has been a year since I posted that message...
It has been a year since I posted that message and since then we decided against developing a GUI. We have functionality that allows you to plug-in external tools into OpenGE (bpipe style) and this...
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Forum: General
04-28-2013, 05:11 AM
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Replies: 24
Views: 135,154
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Forum: Bioinformatics
04-25-2013, 10:46 AM
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Replies: 94
Views: 162,496
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Forum: Bioinformatics
04-25-2013, 09:30 AM
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Replies: 94
Views: 162,496
I think that BWA-MEM outperforms both BWA and...
I think that BWA-MEM outperforms both BWA and BWA-SW. You can check out some of the comparisons we have done on gcat (www.bioplanet.com/gcat) and I am sure others here probably have tried out BWA-MEM...
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Forum: Bioinformatics
04-15-2013, 09:04 AM
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Replies: 14
Views: 7,127
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Forum: Bioinformatics
04-15-2013, 07:11 AM
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Replies: 14
Views: 7,127
GCAT actually uses DWGSIM, but you are right...
GCAT actually uses DWGSIM, but you are right about the assumptions. GCAT also includes real data for variant calling benchmarks but I think you are right, we should try some other simulators.
We...
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Forum: Ion Torrent
04-15-2013, 07:07 AM
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Replies: 70
Views: 23,059
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Forum: Bioinformatics
04-14-2013, 09:08 AM
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Replies: 94
Views: 162,496
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Forum: Bioinformatics
04-14-2013, 09:05 AM
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Replies: 14
Views: 7,127
New way to compare mappers and variant callers
Guys,
I'm starting a new thread for GCAT which is a completely free and collaborative way to compare genome analysis pipelines:
Http://www.bioplanet.com/gcat
You can link to specific...
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Forum: Bioinformatics
04-14-2013, 09:00 AM
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Replies: 94
Views: 162,496
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Forum: General
04-12-2013, 08:45 AM
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Replies: 8
Views: 124,155
I would love to know this fits or does not fit...
I would love to know this fits or does not fit within standards for NGS, but we recently unveiled a new online tool with datasets, metrics, and comparison of major NGS pipeline tools. The whole...
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Forum: Bioinformatics
03-26-2013, 07:33 PM
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Replies: 0
Views: 1,522
help finding indels, etc. in dbSNP database!
I am grabbing the from the NCBI FTP the dbSNP dataset and I have the files by chromosome that list genome location for the variant but I can't tell if it is SNP, indel, MNP, etc.
Has anyone tried...
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Forum: Bioinformatics
03-12-2013, 09:03 PM
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Replies: 5
Views: 2,514
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Forum: General
03-12-2013, 08:54 PM
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Replies: 24
Views: 135,154
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Forum: Bioinformatics
03-12-2013, 08:51 PM
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Replies: 5
Views: 2,514
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Forum: Bioinformatics
03-12-2013, 08:47 PM
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Replies: 1
Views: 1,092
anyone going to Bio-IT
I wonder how many SEQanswers community members are going to attend Bio-IT next month? Are there enough members going that we should do a SEQanswers meet up?
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Forum: Ion Torrent
03-12-2013, 08:43 PM
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Replies: 9
Views: 6,151
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Forum: Bioinformatics
03-12-2013, 08:42 PM
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Replies: 5
Views: 2,514
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Forum: Industry Jobs!
02-06-2013, 08:59 AM
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Replies: 0
Views: 4,009
GPU/bioinformatics programmer
http://careers.nvidia.com/pljb/nvidia/nvidiaemployment/applicant/jobClick.jsp?count=1&id=8314
CUDA SOFTWARE ENGINEER - BIOINFORMATICS LIBRARIES #1563619
As a CUDA Software Engineer for...
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Forum: Introductions
02-06-2013, 08:56 AM
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Replies: 1
Views: 1,148
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Forum: General
01-27-2013, 05:49 AM
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Replies: 24
Views: 135,154
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Forum: Bioinformatics
12-12-2012, 05:40 AM
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Replies: 6
Views: 4,099
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Forum: Bioinformatics
12-11-2012, 05:54 PM
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Replies: 6
Views: 4,099
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Forum: Bioinformatics
12-11-2012, 04:43 PM
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Replies: 6
Views: 4,099
Open source tools for 23andMe data
With the crazy cheap price of 23andMe's chip I wonder what tools we can build to play around with the data. They do a good job of annotating common variants and tracing ancestry. But their data can...
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Forum: Bioinformatics
12-05-2012, 06:03 PM
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Replies: 5
Views: 2,445
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