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Forum: Bioinformatics 10-23-2014, 05:12 PM
Replies: 0
Views: 1,106
Posted By smg283
method for superscaffolding

We have a eukaryotic diploid genome assembled and scaffolded using ALLPATHS-LG. In addition, we have a linkage map generated from iso-crossing individuals and performing reduced-representation...
Forum: Academic/Non-Profit Jobs 08-28-2012, 10:19 PM
Replies: 0
Views: 1,874
Posted By smg283
Postdoc/Technician position: Population genetics/phylogenomics, Hawaii

Aloha! The University of Hawaii Manoa and USDA-ARS Pacific Basin Agricultural Research Center have funding for a post-doc or highly experienced technician in the area of population...
Forum: Bioinformatics 12-17-2010, 12:53 PM
Replies: 0
Views: 1,201
Posted By smg283
Arachne folder structure

I was curious if anyone could help me out with setting up the folder structure for input data into Arachne, it seems a little complicated and I am not getting to much help from the Broad wiki. I am...
Forum: 454 Pyrosequencing 07-15-2010, 12:37 PM
Replies: 5
Views: 4,704
Posted By smg283
This is during the "reading flowgrams" step when...

This is during the "reading flowgrams" step when it is generating an output, it is the most time intensive step of my assemblies (these are eukaryote sized assemblies). There is both available CPU...
Forum: 454 Pyrosequencing 07-14-2010, 02:26 PM
Replies: 5
Views: 4,704
Posted By smg283
Memory Usage in Newbler 2.3

I am using Newbler 2.3 on a 8 core workstation with 64 gb memory (running Ubuntu). It seems that during my newbler assemblies, memory usage is limited to ~20 gb. Is there some reason newbler wont...
Forum: Academic/Non-Profit Jobs 07-07-2010, 02:26 PM
Replies: 0
Views: 2,742
Posted By smg283
Research Computational Biologist / Molecular Biologist (Postdoctoral Research Associa

Bioinformatics in Hawaii!
Position is for a Postdoctoral Research Associate at the US Department of Agriculture Pacific Basin Agricultural Research Center. The scientist will participate with other...
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