betascience.blogspot.com
Beta Science: November 2010
http://betascience.blogspot.com/2010_11_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Saturday, November 27, 2010. Antarctica Part 2 - Getting to Mount Erebus. After arriving in Antarctica. What made the walks even more interesting were the Weddell seals. That had chewed their way through the ice and were lounging on the sea ice near the marked trail. It was my first helicopter ride and it was simply amazing. It was early mornin...
betascience.blogspot.com
Beta Science: July 2009
http://betascience.blogspot.com/2009_07_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Wednesday, July 15, 2009. Gene ontology tool suggestions. I have used a few GO tools in the past, but after looking at the massive list of tools. On the gene ontology page I'm hoping someone can give me a good suggestion for my problem. Any suggestions would really be welcome! Subscribe to: Posts (Atom). View my complete profile. Someone must h...
betascience.blogspot.com
Beta Science: Is PLOS One the future of scientific publishing?
http://betascience.blogspot.com/2009/03/is-plos-one-future-of-scientific.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Tuesday, March 31, 2009. Is PLOS One the future of scientific publishing? I just read about PLOS. Through their relatively new blog, EveryOne. So back to the question that is asked in the title of this post, "Is PLOS. One the future of scientific publishing? Not making the cut (i.e. rejection) results in a large waste of time as authors...The s...
betascience.blogspot.com
Beta Science: October 2009
http://betascience.blogspot.com/2009_10_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Wednesday, October 21, 2009. BioTorrents - a file sharing resource for scientists. Let me ask you a question. If you just wrote a new computer program or produced a large dataset, and you wanted to openly share it with the research community, how would you do that? My answer to that question is BioTorrents. I thought I should finally announce it.
betascience.blogspot.com
Beta Science: An interview with the creator of BioTorrents
http://betascience.blogspot.com/2010/04/interview-with-creator-of-biotorrents.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Wednesday, April 14, 2010. An interview with the creator of BioTorrents. Who better to interview the creator of BioTorrents than the creator himself? Interviewer: So Morgan, your article entitled “ BioTorrents: A File Sharing Service for Scientific Data. 8221; was published today in PLoS One. And in my previous blog post. Morgan: Everyone that ...
betascience.blogspot.com
Beta Science: January 2010
http://betascience.blogspot.com/2010_01_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Saturday, January 30, 2010. Filtering Blast hits by coverage using BioPerl. A couple of days ago I wrote about how I had to throw away a ton of data because I ran out of disk space for a large Blast analysis. Using the " frac aligned query(). And " frac aligned hit(). Functions. For example:. My $searchio = Bio: SearchIO- new(. Note: you need t...
betascience.blogspot.com
Beta Science: May 2010
http://betascience.blogspot.com/2010_05_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Tuesday, May 4, 2010. Use Mendeley to list your publications on your personal homepage. I was updating/creating my personal website. A little while ago and was looking for a good method to keep my "Publications. Page updated without having to edit it manually. At first I played around with using Exhibit. Then I noticed that my Mendeley profile.
betascience.blogspot.com
Beta Science: Antarctica Part 1 - Getting to the ice.
http://betascience.blogspot.com/2010/11/antarctica-part-1-getting-to-ice.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Wednesday, November 24, 2010. Antarctica Part 1 - Getting to the ice. After about 20 hours of traveling I arrived in ChristChurch, New Zealand. It was early morning, and I didn't really now where I was going so I walked from the airport to Antarctica New Zealand. Craig Cary, PI. Ian McDonald, PI. Craig Herbold, Post-doc. Seating was first come ...
betascience.blogspot.com
Beta Science: March 2010
http://betascience.blogspot.com/2010_03_01_archive.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Tuesday, March 2, 2010. Please don't use Clustal for tree construction! There are reams of books, articles, and websites about the correct way to build a phylogenetic tree. My post is not to argue about what is the best method, but rather point out that most people do not consider Clustal. For tree construction, most people would agree that a M...
betascience.blogspot.com
Beta Science: Review of Open Science Summit 2010, #OSS2010
http://betascience.blogspot.com/2010/07/review-of-open-science-summit-2010.html
A post-doc's point of view on bioinformatics, evolution, and microbial diversity; with an interest in cutting edge computer tools that make them all a bit easier. Saturday, July 31, 2010. Review of Open Science Summit 2010, #OSS2010. I have been attending Open Science Summit 2010. At Berkeley, CA and although not quite finished yet I feel like I can give an overall review of what I thought of the conference. You can check out my individual comments during the conference on Twitter. No scheduled breaks...
