similar to: readable dendrograms with many units

Hi, I'm trying to build a mixed-effects model in which I'd like to include either a distance matrix or a phylogenetic tree as a random effect. The troubles I've had are that: 1. Function lmer() in package lme4 only accepts a data frame column as a random factor and not a distance matrix. 2. Function MCMCglmm() in package MCMCglmm only accepts a rooted and ultrametric phylogenetic

-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Hi. I am trying to move the root volume from an existing svm mirror to a zfs root. The machine is a Sun V880 (SPARC) running nv_96, with OBP version 4.22.34 which is AFAICT the latest. The svm mirror was constructed as follows / d4 m 18GB d14 d14 s 35GB c1t0d0s0 d24 s 35GB c1t1d0s0 swap d3

I am beginning to work with the 'ape' package in R, and have run into some trouble. I generated a UPGMA tree based on DNA sequence distance in Paup* and read it into R, where it became an object of class "phylo". However, I need it to be classified as a "dendrogram" for my purposes (to use it to order the layout of a heatmap). I get an error using as.hclust.phylo

Hi, I am seeing the following error when running samba-tool dbcheck # samba-tool dbcheck --cross-ncs ERROR(<class 'KeyError'>): uncaught exception - 'No such element' File "/usr/local/samba4/lib/python3.6/site-packages/samba/netcmd/__init__.py", line 185, in _run return self.run(*args, **kwargs) File

Hi Louis and others, While I cannot speak for the GP, I've had this same problem since I recently (finally!) upgraded to Samba 4.8 (4.8.11). In fact, the very reason I wanted to run dbcheck for was to confirm that Samba still works correctly after upgrading (it does seem to replicate normally, anyway).[1] I've configured Samba with the following switches: --enable-debug --enable-selftest

I''m building an application for a company that has thousands of clients, and for each client there will a set of documents that are private to that client. Rails makes it easy, of course, to show the list of documents on a per-client basis, using acts_as_authenticated and using current_user as part of the find any time a document list is displayed. The part for which I''m looking

Dear all, I wanted to let you know about four phylogenetic comparative methods (PCM) packages that have become available on (3 on CRAN and 1 on GitHub) recently that hopefully will be interesting to somebody. Three of them go significantly beyond the Brownian motion (BM) and Ornstein-Uhlenbeck (OU) processes. 1) There is a new version of mvSLOUCH available. The most important change is that the

Dear all, I wanted to let you know about four phylogenetic comparative methods (PCM) packages that have become available on (3 on CRAN and 1 on GitHub) recently that hopefully will be interesting to somebody. Three of them go significantly beyond the Brownian motion (BM) and Ornstein-Uhlenbeck (OU) processes. 1) There is a new version of mvSLOUCH available. The most important change is that the

Dear R-help listers, Is anyone aware of a function that outputs dendrogram ultrametrics? Cheers, Lisa. PS please reply to me personally as well as to the list because the website wasn't letting me subscribe for some reason. thanks... Lisa Holman Research Officer, Vegetation Dynamics Policy & Science Division NSW Department of Environment & Conservation PO Box 1967, Hurstville 2220.

Take a look at lmekin() in the coxme package. The motivating data set for my development of coxme was the Minnesota Family Breast Cancer project: 24050 subjects in 462 families. The random effect is an intercept per subject with sigma^2 K as its variance where K is the kinship matrix (1 for self-self, .5 for parent-child or sib-sib, .25 for uncle-neice, etc). lmekin is a linear models front

Dear all, The version 1.0 of ape (analysis of phylogenetics and evolution) is now on CRAN. The jump from version 0.2-1 to 1.0 is explained by the fact that the initial objectives of the project have been completed. The relevant part of the Changes file is shown below. All comments, suggestions, or bug reports are welcome. Emmanuel Paradis CHANGES IN APE VERSION 1.0 NEW FEATURES

Hai, What is the OS? Samba version you did upgrade from? I see you compiled samba, can you share the build parameters? And smb.conf with this might be handy. AD-DC or Member or other? If AD-DC, with or without bind9_DLZ Sorry, but more info is better.. Greetz, Louis > -----Oorspronkelijk bericht----- > Van: samba [mailto:samba-bounces at lists.samba.org] Namens Al >

Hi, If I have these fragments in a domain definition, the guest will start with "eth0" assigned by dhcp to an address on my lan. Things seem to work according to the documentation I can find. <network> <name>direct-macvtap</name> <forward mode='bridge'> <interface dev='eth0' /> </forward> </network>

Hi, is there already a release date for Debian Buster packages? kind regards Christian -------------- next part -------------- An HTML attachment was scrubbed... URL: <https://dovecot.org/pipermail/dovecot/attachments/20190902/ac0d599a/attachment.html>

This weekend I upgraded my OS from FC4 to FC6. At the same time I updated Dovecot from 0.99 to 1.0.0. Now, dovecot periodically shuts off. It will run fine for several hours then just dies. Right now my solution is to run a cron every 5 minutes to see if it?s still running, and if not, re-start it. I?m also having trouble finding any sort of meaningful logs to tell me what?s going on. Where

Dear R-helpers, Christoph (author of phyloclim) and Luke (author of tkrplot), I would like to get your helps on installing of phyloclim in Ubuntu linux. It seems a package named 'tkrplot' could not be installed at firstly, then packages depends on it could not be installed latter. As I have tested, installation of phyloclim works smoothly in Mac. I attempted to install these packages in

Dear all, I'm trying to use phylo.pca function from phytools for the first time. I'm using an ultrametric tree with 167 tips and all branch lengths transformed to 1. I lunched the pPCA like this: pPCA<-phyl.pca(tree,data,method = "lambda") For some reason it takes for ever and never reaches the end of the process. I tried with method="BM" and the process runs

Hi, I?ve posted this before but no one was able to help. I can?t figure out what they are trying to do, and if I should be concerned. I am running dovecot version 0.99.14 on Fedora Core 4. It appears that my dovecot server is under attack. This morning in my system e-mail I saw this: dovecot: Authentication Failures: rhost= : 23431 Time(s)

Hi there, Any news about Debian Buster packages in Dovecot community repos? We would greatly appreciate! Soon going live with two rather big Dovecot servers and would prefer upgrading them to Buster before. I will definitely bow my head and look for some donation button! Thanks, Philip > On 2 Sep 2019, at 14:43, slater.ch via dovecot <dovecot at dovecot.org> wrote: > > Hi, >

We tackled in-place edit in the latest screencast in our free Learning Rails course: www.BuildingWebApps.com/learningrails/14 We were surprised to find that the in-place edit plugin in the official Rails repository still hasn''t been updated to be functional with Rails 2, and that it doesn''t support several of the options in the Scriptaculous code that it wraps. We worked