similar to: cumsum formula to determine plankton phenology

Apologies for the empty email earlier! I have species abundance data sampled at a weekly frequency or sometimes monthly depending on the year. The goal is to identify the dates in an annual cycle in which the cumulative abundance of a species reaches some threshold. Here's an example of the data for 1 species over an annual period: "mc_pheno" is the object created from this data:

Dear All, I am running R in a system with the following configuration *Processor: Intel(R) Xeon(R) CPU X5650 @ 2.67GHz OS: Ubuntu X86_64 10.10 RAM: 24 GB* The R session info is * R version 2.14.1 (2011-12-22) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8

Dear All, I am running R in a system with the following configuration *Processor: Intel(R) Xeon(R) CPU X5650 @ 2.67GHz OS: Ubuntu X86_64 10.10 RAM: 24 GB* The R session info is * R version 2.14.1 (2011-12-22) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8

Dear all I would like to use R and make some maps. I want to have strict control, over the details of the produced map, like remove borders, city names, add markers, add labels. Is there any package apart Rgooglemaps that can do something like that? B.R Alex [[alternative HTML version deleted]]

I know citation() gives the R citation to be used in publications. Has anyone put this into endnote nicely? I'm not very experienced with endnote, and the way I have it at the momeny the 'R Development Core Team' becomes R. D. C. T. etc. Cheers.

Hi all, I have never worked with this kind of data before, so Please help me out with it. I have the following data set, in a csv file, looks like the following: Jan 27, 2010 16:01:24,000 125 - - - Jan 27, 2010 16:06:24,000 125 - - - Jan 27, 2010 16:11:24,000 176 - - - Jan 27, 2010 16:16:25,000 159 - - - Jan 27, 2010 16:21:25,000 142 - - - Jan 27, 2010 16:26:24,000 142 - - - Jan 27, 2010

Is there a function that will allow me to run all model iterations if I specify a full model? I am using information criteria to choose between possible candidate models. I have been writing out all possible model combinations by hand, and I am always worried that I am missing models or have made a mistake somewhere. It is also difficult to alter models if I want to change a term. For example,

I use R 2.15.2 on MacosX 10.8.2 I have a problem checking for a package that I want to submit in CRAN. When I check like that, no problem or warning are detected. system("R CMD check '[path]/phenology'") I create the .tar.gz package with that. The file phenology_3.43.tar.gz is generated. I can install the package and it works. system("R CMD build

Hi, Does anyone know what the error message mean? > Boot2.Pillai <- function(x, ind) { + x <- as.matrix(x[,2:ncol(x)]) + boot.x <- as.factor(x[ind, 1]) + boot.man <- manova(x ~ boot.x) + summary(manova(boot.man))[[4]][[3]] + } > > man.res <- manova(as.matrix(pl.nosite) ~ + as.factor(plankton.new[,1]))$residuals > boot2.plank <-

Hi, I try to make my first package? The HelloWorld.R file is: #### HelloWorld.R #### #' showHello est une fonction R permettant d'afficher le message #' "Hello World!" sur la console. #' @title la fonction showHello() showHello <-function(){ cat("Hello World!\n") } I use the following procedure to get the tar: # set the working directory where the file is

Dear List, I am having problems running stepAIC with a negative binomial regression model.  I am working with data on manta ray abundance, using 20 predictor variables.  Predictors include variables for location (site), time (year, cos and sin of calendar day, length of day, percent lunar illumination), oceanography (sea surface temp mean and std, sea surface height mean and std), weather (cos

Dear R-er, For a non-linear optimisation, I used optim() with BFGS method but it stopped regularly before to reach a true mimimum. It was not a problem with limit of iterations, just a local minimum. I was able sometimes to reach better minimum using several rounds of optim(). Then I moved to optimx() to do the different optim rounds automatically using "Nelder-Mead" and

I'm trying to select a model under PCA using independent contrasts. Since PICs need to be forced through the origin I've been using lmorigin for the original regression, but it doesn't appear that stepAIC recognizes it. I keep receiving an error message - "Error in na.fail.default(list(Phenology = c(NA_integer_, NA_integer_, : missing values in object" I'm having

Hi, Suppose I have: > summary(manova(plank.man)) Df Pillai approx F num Df den Df Pr(>F) plankton.new[, 1] 1 0.5267 9.8316 6 53 2.849e-07 *** Residuals 58 --- Signif. codes: 0 `***' 0.001 `**' 0.01 `*' 0.05 `.' 0.1 ` ' 1 My understanding is the MANOVA summary returns a list.

Hello, I am currently trying to show the abundance of two species of zooplankton within the North Sea as pie chart bubble plots. I followed Werner Wernersen's advice in R help (http://finzi.psych.upenn.edu/R/Rhelp02a/archive/48644.html) and used Paul Murrell's paper "Integrating Grid Graphics Output with Base Graphics Output" (in R News) to try and do this (using the gridBase

Hello eveybody, I am studying the vertical distribution of plankton and want to study its variations relatively to several factors (time of day, species, water column structure etc.). So my data is special in that, at each sampling site (each observation), I don't have *one* number, I have *several* numbers (abundance of organisms in each depth bin, I sample 5 depth bins) which

Thanks to the many people who adviced me on this topic. xfig works very well, at least for what I have to do now. I'd like to answer the message by Paul Marrell as well as encourage others to do so: On Fri, 23 Nov 2001, Paul Murrell wrote: > I would be very interested to know the sorts of things you do to add things > interactively to plots. > > As one reply mentioned, there

CRAN (and crantastic) updates this week New packages ------------ * EffectStars (1.0) Maintainer: Unknown Author(s): Gunther Schauberger License: GPL-2 http://crantastic.org/packages/EffectStars The package provides functions to visualize regression models with categorical response. The effects of the covariates are plotted with star plots in order to allow for an optical

The USDA-Agricultural Research Service, Southeast Watershed Research Unit in Tifton, GA, is seeking a postdoctoral research associate for a full-time, 2 year appointment. The research associate will develop, calibrate, and validate a semi-empirical model for estimating cotton biomass from fields within the southeastern United States. Model development will involve the use of optical and radar

does anybody have a suggestion as to how to use R to fit some date to a cosine function and then have some output statistics that will evaluate the fit? -- View this message in context: http://r.789695.n4.nabble.com/cosine-curve-fit-tp4650866.html Sent from the R help mailing list archive at Nabble.com.