tag:blogger.com,1999:blog-8499895524521663926.post6687884577363750599..comments2020-02-26T14:53:08.309-05:00Comments on Phylogenetic Tools for Comparative Biology: New function: phylogenetic paired t-testLiam Revellhttp://www.blogger.com/profile/04314686830842384151noreply@blogger.comBlogger4125tag:blogger.com,1999:blog-8499895524521663926.post-30911877452201114952016-09-07T19:50:22.336-04:002016-09-07T19:50:22.336-04:00Hi Liam-
I have a very basic question. What is the...Hi Liam-<br />I have a very basic question. What is the format for the phylogenetic tree to be loaded into phytools to do this analysis? How do I get the trait values for the two traits in the paired t-test to match up to their corresponding species in the tree?<br />I am working with a small tree- only 17 taxa- but I can't figure out this step.<br />Sorry- I know this is really entry level stuff, but I could not find instructions for this basic (but critical!) step in any online documentation. <br />Thanks- I am excited to see that this analysis may be possible. Anonymoushttps://www.blogger.com/profile/01954367466190209650noreply@blogger.comtag:blogger.com,1999:blog-8499895524521663926.post-46113014258072390392016-03-17T04:18:22.935-04:002016-03-17T04:18:22.935-04:00Dear Liam,
I have encountered a strange problem wi...Dear Liam,<br />I have encountered a strange problem with this function. When I use phyl.pairttest lambda is not optimised properly. It always takes a value close to the initial lamba settings. Is there a way to deal with this problem? How can I increase number of iterations when lambda is optimised? I have data on 194 speices, so small sample size shouldn't be the problem. My phytools version is 0.5.0.<br /><br />Your help would be much appreciated.<br /><br />Best,<br />AnnaAnna Lestárhttps://www.blogger.com/profile/18225638729445186626noreply@blogger.comtag:blogger.com,1999:blog-8499895524521663926.post-16888177523606656502012-09-03T12:56:05.069-04:002012-09-03T12:56:05.069-04:00Pretty cool little function! Thanks very much for ...Pretty cool little function! Thanks very much for it!<br />Do you have any non-parametric test like this by the way? E.g. phylogenetic paired wilcoxon test?Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-8499895524521663926.post-53692553314502003202011-05-26T22:02:01.362-04:002011-05-26T22:02:01.362-04:00cool to see you found the time to work on this, th...cool to see you found the time to work on this, thanks! For some of my variables, the results for that function I had are close, but for others they're really different; so I guess I was pretty off. Still, was a good practice. So, once more, thanks!Rafael Maiahttps://www.blogger.com/profile/02395303011366399867noreply@blogger.com