[MORPHMET] Help using R with the vegan package

[Callie Diduck]

Hello, 

I am wondering if anyone can help me solve the error I keep getting while 
using R. I am using the vegan package in R to do a Procrustes Rotation of 
Two Configurations and PROTEST but I continue to 
get an error message after the line highlighted in yellow which says 
"Error: attempt to apply non-function". I have just started using R and 
this might be a very simple fix but I can't seem to figure out 
what the error message means or how to fix it. If I try to run all of the 
coding below the yellow highlighted lines I also get the same error. 
Any advice would be greatly appreciated! 


This is the code I'm using: 

X <- read.csv("a.csv", header=FALSE)

Y <- read.csv("10497.csv", header=FALSE)

require(vegan)

procrustes(X, Y, scale = TRUE, symmetric = FALSE, scores = "sites",)

## S3 method for class 'procrustes'

summary(X, digits = getOption("digits"),)

 ## S3 method for class 'procrustes'

plot (X) (X, kind=1, choices=c(1,2), to.target = TRUE, type = "p", 
len=0.05, cex = 0.7,) 

## S3 method for class 'procrustes'

points (Y) (X, display = c("target", "rotated"), choices = c(1,2), truemean 
= FALSE) 

## S3 method for class 'procrustes'

text(X, display = c("target", "rotated"), choices = c(1,2), labels, 
truemean = FALSE)

## S3 method for class 'procrustes'

lines(X, type = c("segments", "arrows"), choices = c(1, 2), truemean = 
FALSE)

 ## S3 method for class 'procrustes'

residuals(object)

 ## S3 method for class 'procrustes' 

fitted(object, truemean = TRUE,) 

## S3 method for class 'procrustes' 

predict(object, newdata, truemean = TRUE,) 

protest(X, Y, scores = "sites", permutations = how(nperm = 999))


Thanks, 


Callie Diduck 

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[MORPHMET] FOR EARLY POST-DOCS Fwd: [dzg-evol] Berlin, Germany: College for Life Sciences Fellowships

[andrea cardini]

Dear all,
this is not strictly morphometric but it could be on a morphometric 
project and looks like a wonderful opportunity for early post-docs. I've 
asked a few more details about eligibility. Here they are:


"The program is open to all nationalities and there is no particular age 
limit however the program is dedicated to early-career scientists who 
have obtained there PhD and who have at least one first author 
publication (postdocs, junior group leaders, lecturers, assistant, 
associate and junior professors) who have no longer than five years 
their own group. The Fellowship is open to all life sciences disciplines.
Information about regular Fellowships at the Wissenschaftskolleg can be 
found here https://www.wiko-berlin.de/en/fellows/fellowships/admission/;


I would not miss the chance to try (if I wasn't too old!). Good luck.
Cheers

Andrea


 Forwarded Message 
Subject:[dzg-evol] Berlin, Germany: College for Life Sciences 
Fellowships



*GAIN TIME TO THINK! 2018/19
COLLEGE FOR LIFE SCIENCES FELLOWSHIPS
DEADLINE:  JANUARY 7, 2018*
Call for Applications
https://cfls-application.wiko-berlin.de/ 



The College for Life Sciences, a junior program of the 
Wissenschaftskolleg zu Berlin (Institute for Advanced Study), offers 
young life-sciences scholars from around the world an opportunity to 
take a break from the lab and gain time to work and develop their own 
projects and immerse themselves in an intellectually and culturally 
diverse environment.


Each year the Wissenschaftskolleg welcomes internationally recognized 
senior as well as promising junior scholars in all fields of knowledge, 
including the humanities, the social sciences and the arts and we invite 
you to become part of this "learning community". Our goal is to promote 
a kind of science that transcends disciplinary boundaries and goes 
beyond established issues and approaches.


Through the College for Life Sciences we promote scientists at the 
beginning of their career, i.e. postdocs, junior group leaders, 
lecturers, assistant, associate and junior professors.


The fellowships are intended for residencies of 3-6 months during the 
academic year 2018/19, i.e. September 2018 - June 2019.


BENEFITS OF THE FELLOWSHIP
* Three to six months' residency at the Wissenschaftskolleg in Berlin
* A full stipend based on your previous salary
* Studio accommodation on campus
* Freedom to pursue a project of your choice
* Insight into new areas of knowledge and research cultures
* Integration into a unique international community of Fellows
* Access to Berlin's excellent scholarly and scientific community
* Access to the Wissenschaftskolleg's outstanding library and IT services

We do not offer any lab space. For more details please visit:
www.wiko-berlin.de/cfls 

APPLICATION AND REQUIREMENTS
Please apply by January 7, 2018 with a project outline (about 1000 
words), a letter stating your motivation for wishing to obtain a 
fellowship (about 500 words), your complete curriculum vitae, and a list 
of your publications here: https://cfls-application.wiko-berlin.de/ 



You are completely free to choose the project that you will pursue at
the Wissenschaftskolleg; we impose no thematic presettings whatsoever.

You must have obtained your doctorate by the start of your fellowship, 
and we also require that you have at least one lead-author publication 
in a peer-reviewed journal. There are no restrictions regarding your 
discipline of origin in the life sciences, nationality, or age etc. 
Applications from scientists working at institutions in Berlin cannot be 
taken into consideration. If you have been a principal investigator for 
longer than five years, though, you are advised to apply for a regular 
fellowship at the Wissenschaftskolleg.


Dr. Ulrike Pannasch
Wissenschaftliche Koordinatorin
Academic Coordinator College for Life Sciences
ulrike.panna...@wiko-berlin.de 

WISSENSCHAFTSKOLLEG ZU BERLIN
INSTITUTE FOR ADVANCED STUDY
Wallotstrasse 19
14193 Berlin
Tel.: +49 30 89 00 1 - 255
Fax: +49 30 89 00 1 - 100
www.wiko-berlin.de/cfls 

Dr. Ulrike Pannasch
Wissenschaftliche Koordinatorin/Academic Coordinator College for Life 
Sciences

Wissenschaftskolleg zu Berlin / Institute for Advanced Study
Wallotstr. 19, 14193 Berlin
Tel. +49 - 30 - 89 001 -
255http://www.wiko-berlin.de/institution/college-for-life-sciences/ 


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