[R-sig-eco] Statistics software question

2019-01-31 Thread Novack-Gottshall, Philip M.
Hi all, Apologies for cross-posting, but I'm not sure where this best lands. I'm trying to find people who have access to (preferably some experience with) any of the following statistical software programs: -MiniTab -SAS -SPSS -S-Plus -STATA -SYSTAT If you do, might you contact me off-list ?

[R-sig-eco] New R package for K-S goodness-of-fit tests

2016-03-29 Thread Novack-Gottshall, Philip M.
Greetings, We wanted to announce a new R package 'KScorrect' that carries out the Lilliefors correction to the Kolmogorov-Smirnoff test for use in goodness-of-fit tests. It's well-established it's inappropriate to use the K-S test when sample statistics are used to estimate parameters, which

Re: [R-sig-eco] issues with Non euclidean distance using function dbFD

2016-01-18 Thread Novack-Gottshall, Philip M.
Hi Edward, dbFD can sometimes be mercurial for peculiar data sets, and it seems your experience is typical. The presence of functionally identical taxa (assuming that's the case in your data, given the high frequency of zero distances you report) can make things more troublesome. (This was fixed

Re: [R-sig-eco] error message in package FD, function dbFD ()

2015-07-15 Thread Novack-Gottshall, Philip M.
Laura, Does one of your species names have a blank space at the end of it (that's invisible to your eye, but seen by R)? Without your actual data files, I can't diagnose the exact details. But if you reveal the dbFD() code [command line: dbFD] and search for your error message, you'll find that

Re: [R-sig-eco] Bugs in FD package, function dbFD ()

2015-07-15 Thread Novack-Gottshall, Philip M.
The same error comes up when doing the example from the FD package. Any idea how to get around this? Thank you/Grazie Laura -Original Message- From: Novack-Gottshall, Philip M. [mailto:pnovack-gottsh...@ben.edu] Sent: den 15 juli 2015 16:12 To: Laura Riggi; r-sig-ecology@r-project.org

Re: [R-sig-eco] Manual Rarefaction and CI's

2014-05-28 Thread Novack-Gottshall, Philip M.
Hi Nicholas, What you're doing seems proper to me (but see below regarding calculation of the SE). Rarefaction error windows should coalesce around the endpoint as you get to larger randomized samples. And you only have limited numbers of richness values to draw from. You can confirm this

Re: [R-sig-eco] sd normalmixEM

2014-05-15 Thread Novack-Gottshall, Philip M.
and with densityMclust best regards Mariela On Fri, May 9, 2014 at 11:30 AM, Novack-Gottshall, Philip M. pnovack-gottsh...@ben.edumailto:pnovack-gottsh...@ben.edu wrote: Have you tried taking a look at the mclust package? It's quite flexible, and obtains these statistics. Phil On 5/9/2014 8:30 AM, Mariela Sued

Re: [R-sig-eco] sd normalmixEM

2014-05-09 Thread Novack-Gottshall, Philip M.
Have you tried taking a look at the mclust package? It's quite flexible, and obtains these statistics. Phil On 5/9/2014 8:30 AM, Mariela Sued wrote: Hi! I am using normalmixEM to fit a mixture of normal distributions. I dont see an estimation of the standard deviation of the parameters.

Re: [R-sig-eco] How to accommodate data with negative values for Canonical Correspondence Analysis in R using vegan Package

2014-02-26 Thread Novack-Gottshall, Philip M.
Rajendra, Would converting the temperatures to degrees Kelvin work? (You cold back-transform after analysis when presenting results/figures.) Cheers, Phil On 2/26/2014 6:43 AM, Rajendra Mohan panda wrote: Dear All I have temperature data with negative values which I am not able to include

Re: [R-sig-eco] Any packages that include kernal density

2014-01-03 Thread Novack-Gottshall, Philip M.
Hi Bruce, Not sure if it's what you're looking for, but you can do two and three dimensional KDEs using package kde2d() in package MASS and various functions in package ks. Nice visualizations (2-D and 3-D) can then be done using persp3d in package rgl (or perhaps package plotrix). A nice

[R-sig-eco] Extracting list elements

2013-08-13 Thread Novack-Gottshall, Philip M.
All, Please excuse what may be a slightly off-topic question. I'm having trouble extracting elements from a list of lists. Here is an example: # Make list of lists: seq - 1:100 l - vector(list, 100) for (i in seq) {l[[i]] - list(species=seq[i], name=as.character(seq[i])) } # Extract

Re: [R-sig-eco] Function for continuing past stop error

2013-07-25 Thread Novack-Gottshall, Philip M.
, University of Zürich On 25 Jul 2013, at 3:32 PM, Novack-Gottshall, Philip M. pnovack-gottsh...@ben.edumailto:pnovack-gottsh...@ben.edu wrote: Hi all, I'm wondering if anyone knows of a function to continue after a stop/error call in a loop. Something akin to next, but able to deal with a stop

[R-sig-eco] Fitting logistic function to data that crosses the origin

2013-06-18 Thread Novack-Gottshall, Philip M.
Greetings, I am looking for advice on fitting a logistic function to logged data that includes negative values. Background: The data is body-size data, which is conventionally analyzed in logarithmic form. Because the dependent variables cross the value of 1, the logged data includes both