similar to: Mantel test!

Dear all, I would like to compare two distance matrices to find the correlation between those and create a XY plot.could you please kindly help me and let me know how I can do that using R.(Mantel test?). Your help is very much appreciated!! Many thanks! Regards, Sima Fakheran ............................................................... Sima Fakheran Esfahani PhD Student Institute of

I've tried to re-experiment the tutorial presented at http://www.rdatamining.com/docs/twitter-analysis-with-r and specifically aimed to use rds files (tweet records) at http://www.rdatamining.com/data/. On Sun, Apr 22, 2018 at 9:16 PM, Jeff Newmiller <jdnewmil at dcn.davis.ca.us> wrote: > Wouldn't the obvious problem be that your data file is corrupted or was > never created

Wouldn't the obvious problem be that your data file is corrupted or was never created using saveRDS in the first place? Can you show us a complete example of creating and attempting to read what was just created? On April 22, 2018 10:20:05 AM CDT, mohammad moradi <mri.moradi at gmail.com> wrote: >Hi there, > >I faced a weird problem doing a seemingly simple task in R.

Hi I install the xcp from the http://wiki.xen.org/wiki/XAPI_on_Ubuntu. But I got this error while configuring xcp-xapi: xcp-networkd (1.3.2-1ubuntu1~oneiric1) wird eingerichtet ... Starting the XCP networking daemon: .............................. * failed to start xcp-networkd. invoke-rc.d: initscript xcp-networkd, action "start" failed. when I comment the

I would like to perform partial mantel tests on only within group values, with "between group" values assigned to NA. This is possible in package ncf partial.mantel.test, however this sues a different permutation to that used in ecodist.ecodist will not accept data with NA values, returning a "matrix is not square error. is it possible to perform this test in ecodist? many thanks

Dear R users, I am having a problem performing the mantel test (both with functions mantel {vegan} and mantel.test {ape}) due to I believe the presence of NAs on my distance matrices, which look like e.g.: NA 1 2 1 2 3 NA 4 5 6 and 1 1 2 2 3 4 5 6 7 8 Would any of you have a solution for that? Thank you for much for your help! Marcia Rocha -- View this message in

How can I install a dual boot centos in my laptop while my windows has UEFI partition? -- With The Best H.Lanjanian ----------------------------------------------------------------------- Hossein Lanjanian, Ph.D. student Laboratory of Systems Biology and Bioinformatics (LBB) Institute of Biochemistry and Biophysics (IBB), University of Tehran Tehran, Iran http://LBB.ut.ac.ir

Hi everyone, Is it possible to use tapply(x,y,mean) if not all groups of x by y are of the same length (for example if you have one missing observation)? I tried tapply(x,y,mean,na.omit=T) but it doesn't work! Steffi -- --------------------------------- Stefanie von Felten Doktorandin ETH Z?rich Institut f?r Pflanzenwissenschaften ETH Zentrum, LFW A 2 Telefon: 044 632 85 97 Telefax: 044

Does anyone know of an R function for computing the Greenland-Robins variance for Mantel-Haenszel relative risks? Thanks Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

> Background: > OS: Linux Ubuntu Dapper > release: R 2.3.0 > editor: GNU Emacs 21.4.1 > front-end: ESS 5.2.3 > ----------------------------- > Colleagues > I have two spatial datasets (latitude, longitude, fish eggs) and (latitude, longitude, fish larvae) at the same 280 stations (i.e. 280 cases). I want to determine if the 2 datasets are spatially correlated. In other

Hello, I performed a Mantel test and plotted communitiy similarities. I would like to add a least square line. I thought about using abline taking as slope the r-statistic of the Mantel test and calculating the y-intercept analytically. Is this method correct? Is there any function for this calculation? Thank you -- View this message in context:

Dear all, Has anyone written R code for partial Mantel Tests- as described for instance in Legtendre & Legendre (1998) ? In other words, in a community ecology analysis, I would like to calculate the correlation between two dissimilarity matrices, controlling for a third distance matrix representing geographical distances between sites. Thanks! Christophe Bouget Biodiversité et gestion des

Hi, I am trying to use a mantel test on two distance matrices. The code I have entered for each is: Gen_dists <- read.csv(file.choose(), stringsAsFactors = FALSE, na.strings = c(" "), fill = T,

I'm trying to perform a mantel test that ignores specific pairs in my distance matrices. The reasoning is that some geographic distances below a certain threshold suffer from spatial autocorrelation, or perhaps ecological relationships become less relevant that stochastic processes above a certain threshold. The problem is that I can't find a way to do it. If I replace values in either or

Hello! It is not really linked to R, but can somebody explain me why we sometimes make a mantel test directly for to distance matrices and sometimes we first make a gradient analysis and then a mantel test between the axis? Thank you -- View this message in context: http://www.nabble.com/Mantel-test-tp25439984p25439984.html Sent from the R help mailing list archive at Nabble.com.

Dear R'ers, When I used S-plus i wrote a small program for a Mantel-Haenszel test for trend (I think it worked). Unfortunately I can't get it working in R. It appears as if my use of 'el' is the problem but I can't sort it out. Error in apply(array, c(, 2, 3), function(el) el * 1:s) : argument is missing, with no default Further down in the program I use 'el'

Hi all, Does anyone know if an R function for the Mantel-Haenszel chi-square for a 2x2 table exists? I’ve also seen it called the randomization Q statistic. Note that I’m not looking for the Cochran-Mantel-Haenszel…I did see that out there as cmh.test. Thanks in advance, Jeff Internal Virus Database is out-of-date. Checked by AVG Free Edition. 11:27 AM [[alternative HTML version

I would like to know how to run a partial mantel test controlling for spatial autocorrelation and correlation with other environmental variables. It seems that with function included in vegan for partial mantel test I can only test for the relationship between two variables controlling for the effect of a third one. Thanks a lot Alexandra --- Lic. Alexandra Sapoznikow Centro Nacional

Hi everyone, I have two matrices of 2000x2000 size. They consist of a measurement of RMSD deviations of a protein structure. The basic question i want to answer is the following: are there a significant differences between the two matrices? I aim to use the Mantel test. I don't really know if this is a good idea or if there are better solutions for these mega matrices. Thanks [[alternative

Dear Gavin, What is the interpretation of a simulated p-value of 1 in a mantel test and how is the p-value derived? When we run two highly negatively correlated matrices we get this result: r: -1, simulated p value: 1 I would expect the high p-value of 1 to mean not significant. Could you clarify? Thank you, Jason Jason P. Sexton Graduate Group in Ecology University of California,