similar to: transforming data prior to CCA

Hii rstudio members I am learning rstudio, For my manuscript I am trying to plot CCA using species and environmental data. But I am getting error like Error in cca.default(sptrans, envtrans) : all row sums must be >0 in the community data matrix *My code is like * library(vegan) library(ggplot2) library(dplyr) rassspec<-read.csv("C:/Users/hp/Desktop/R_data/rassspec.csv",

Can anyone point me in the right direction of figuring out what downweight() is doing? I am using vegan to perform CCA on diatom assemblage data. I have a lot of rare species, so I want to reduce the influence of rare species in my CCA. I have read that some authors reduce rare species by only including species with an abundance of at least 1% in at least one sample (other authors use 5% as a

Hi everyone! Model: http://pastie.org/511290 Controller: http://pastie.org/511285 View new: http://pastie.org/511286 View _form: http://pastie.org/511284 When I hit submit button there''s an error for usuarios(users in portuguese) instance. It does not seems to save usuarios even though it seems to be posted by the form. Error: http://pastie.org/511292 Need some help here guys plz --

Hi All, I am trying to perform CCA and RDA several times to compare their performances. To do that I put this two functions of vegan package inside a for loop. Unfortunatly when I am trying to perform the anova(by=axis) to test the individual axes the function don't recognize the species data.frame. The same problem occurs whem I try to run forward selection. The same problem occur when I try

Dear all, Is there a package in R that has implemented the MANN (Multiresponse Artificial Neural Network) presented in (Olden, 2006 - Ecological Applications)? Best Wishes, -- Prof. Gilson Correia de Carvalho, M.Sc. ---------------------------------------------------- Pesquisador Associado Laboratório de Ecologia Bentônica - LEB Instituto de Biologia - UFBA Universidade Federal da Bahia - UFBA

Hi. Please, how can I put together 2 or more lines at the same scatterplot ? Example: measures of protein intake (quantitative) of 4 children over 30 days, by day. How to plot all children at same graphic: Protein X Time ? Is there any command like "overlay" ? Thank you, Mauricio

Dear all, Does anyone knows why the results of a BIOENV (PRIMER v. 6.1.15) are diferent of the bioenv() + mantel() in vegan? Not the spearman correlation, indeed the pseudo-p value. I know that the approach bioenv() + mantel() is biased. So, how the BIOENV (PRIMER) ends with larger p values (permutated). Acctualy how the permutation test in BIOENV (PRIMER) is conducted. The user guide does not

I am a Professor of Statistics at Indira Gandhi Krishi Vishwavidyalaya, Raipur, India. While teaching in class about analysis of variance using R, I was doing a one-way analysis for the two data-sets given below in the R-class. I got a typical error in "emmeans" package, please help: Data-set-1: -------------- Medley and Clements (1998) investigated the impact of zinc contamination (and

On 07/01/18 02:19, Akhilesh Singh wrote: > I am a Professor of Statistics at Indira Gandhi Krishi Vishwavidyalaya, > Raipur, India. While teaching in class about analysis of variance using R, > I was doing a one-way analysis for the two data-sets given below in the > R-class. I got a typical error in "emmeans" package, please help: > > Data-set-1: > --------------

Hi, I'm trying to make a boxplot with the data at the end of the message, and when I try to execute the command >boxplot(Diatoms) (or for any other field instead of "Diatoms") I get the following error message: Error in oldClass(stats) <- cl : adding class "factor" to an invalid object Any advice would be much appreciated. Thanks a lot, Miriam Date

Thanks for your kind reply. Problem is solved. However, it's "confidence interval / treatment comparison plot" is not taking main title. And the fonts of axes labels can not be changed using 'cex' parameter. I will appreciate if you could help in this matter too. Dr. A. K. Singh On 09-Jan-2018 8:18 PM, "Sal Mangiafico" <salvatore.s.mangiafico at gmail.com>

Hi everyone, I'm trying to make quota to work in dovecot 1.0.rc15 in a Debian machine. Setting the limit to 1GB and starting to fill up the mailbox and nothing stopped me. It just kept growing and nothing happened. Restarted the service and nothing. I had already exceeded the 1 GB limit and nothing happens, the mailbox still goes bigger and bigger... The *"check_quota"* plugin for

Hi Does anyone know where is the package: npmc (Nonparametric Multiple Comparisons). I found the reference on R Site Search, but not the package itself on CRAN as suggested. Thanks Mauricio

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Please, how to fill the area under the curve? x <- c(1:10) y <- c(rnorm(10)) plot(x,y) lines(x,y) Thanks, Mauricio Cardeal

Hello! I would like to know how do I citate R? I have used it during my Master thesis but I don’t know how to citate during the text and on the references. I’ve looked for it on the web page but only found how to citate the FAQ. Thank you in advance. Tatiana Fernandes Universidade Estadual do Norte Fluminense Laboratório de Ciências Ambientais - CBB Av. Alberto Lamego, 2.000 - Campos dos

hi everyone, so,first it seemed a trivial question to me, but since I could not find anybody being neither able to answer this question nor giving a short config example. after a few sleepless nights and exhausting all the reading and research. here I am sharing my problem with all of you, in the hope of some possible solution/sugestion. or is it that this is impossible?? below my

Hi all, I'm trying to use lapply on a list with the following command: out<-lapply(mylist,myfun,par1=p,par2=d) (1) where myfun<-function(x,par1,par1) {.....} (2) now this function is in fact a wrapper for some Fortran code I have written so I think this might be the problem. When I call lapply() as in (1) I get the following message: Error in get(x,

Dear R-experts, I have a table with following collumns: State, SamplePlot, Species and BodySize. I sampled bird species at 34 SamplePlots and 5 States (regions) monthly during two years. On each bird record I measured bodysize and identified the species. So I have many records of each species (about 150 species) at each SamplePlot and each Region (State). Now I would like bootstrap

Hi All I am not clear quite how one could use cca from package vegan and the associated predict.cca to predict species abundance from environmental data (or if this is possible in a generalised way). In other words, can one derive a cca object based on known community data and use that to predict e.g. species abundances in a different number of samples based on environmental data? The help