tag:blogger.com,1999:blog-10781944.post4734068643755859109..comments2024-03-28T00:36:36.460-07:00Comments on The Tree of Life: Looking to open access (preferably w/ CC licenses) review papers covering introduction to phylogenetic trees and methodsJonathan Eisenhttp://www.blogger.com/profile/07953790938128734305noreply@blogger.comBlogger6125tag:blogger.com,1999:blog-10781944.post-22659751299794089332010-03-29T23:53:24.513-07:002010-03-29T23:53:24.513-07:00Some suggestions from twitter:
mrgunn
@phylogen...Some suggestions from twitter: <br /><br />mrgunn <br />@phylogenomics How about this one: http://bit.ly/ang7sM<br /><br /> @pathogenomenick: @phylogenomics these slides from nick matzke caught my eye recently http://bit.ly/bCh5ZeJonathan Eisenhttps://www.blogger.com/profile/07953790938128734305noreply@blogger.comtag:blogger.com,1999:blog-10781944.post-81207121862545339322010-03-29T23:44:31.636-07:002010-03-29T23:44:31.636-07:00Great - thanks all - some of these are excellentGreat - thanks all - some of these are excellentJonathan Eisenhttps://www.blogger.com/profile/07953790938128734305noreply@blogger.comtag:blogger.com,1999:blog-10781944.post-46415837661565892562010-03-29T09:16:40.879-07:002010-03-29T09:16:40.879-07:00A technicla paper for the basic and optimized Sank...A technicla paper for the basic and optimized Sankoff's parsimony under cost matrices:<br /><br />http://www.biomedcentral.com/1471-2105/10/51<br /><br />Clemente et al. 2009. Optimized ancestral state reconstruction using Sankoff parsimony. Bioinformatics 10: 51.Salvahttps://www.blogger.com/profile/01062764779798191688noreply@blogger.comtag:blogger.com,1999:blog-10781944.post-57354332787847614792010-03-29T06:51:41.433-07:002010-03-29T06:51:41.433-07:00Not sure about the licensing issues, but I like th...Not sure about the licensing issues, but I like this one: http://research.cs.queensu.ca/home/cisc875/faint.pdf<br /><br />"Phylogeny for the Faint of Heart." Great title. It is 2003, so might be out of date.Doughttps://www.blogger.com/profile/05579460399354530509noreply@blogger.comtag:blogger.com,1999:blog-10781944.post-64221178191345342322010-03-28T13:11:02.217-07:002010-03-28T13:11:02.217-07:00Oh, my comment lives! Sorry about the double-posti...Oh, my comment lives! Sorry about the double-posting.Lukehttps://www.blogger.com/profile/16883105334535302582noreply@blogger.comtag:blogger.com,1999:blog-10781944.post-51265968501521355292010-03-28T13:10:02.796-07:002010-03-28T13:10:02.796-07:00Hmm, blogger ate my comment, so a bit more brief t...Hmm, blogger ate my comment, so a bit more brief this time.<br /><br />1) <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2375977/" rel="nofollow">This 2008 paper</a> by Stéphane Aris-Brosou and Xuhua Xia reviews the statistical methods used in the entire phylogenetics life-cycle<br /><br />2) <a href="http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0040352" rel="nofollow">This paper</a> by Sean Carroll reviews the efforts and reasons for failure in hard-to-resolve phylogenies<br /><br />3) <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2254468/" rel="nofollow">This paper</a> by Hanno Sandvik discusses the problems that students can have when thinking about trees, and include some practice questions.<br /><br />All these papers are released under some form of CC Attribution License.Lukehttps://www.blogger.com/profile/16883105334535302582noreply@blogger.com