‘read.morphologika’ update

January 13, 2013
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(This article was first published on geomorph, and kindly contributed to R-bloggers)


Update for read.morphologika function. This code will be added to geomorph on our next package update. This update fixes problems with message "object 'incoords' not found". Can be used with example data set mydata_readmorphologika. Here, I provide sample data in the Morphologika format composed of two specimens with 50 landmarks each, and with four data attributes. To import data attributes use matrix = TRUE, and make sure Morphologika attribute tags: '[labels]' and '[labelvalues]' are present, else use matrix = FALSE.The latter imports an array of landmarks only. Please see the geomorph manual for use of read.morphologika.


For example:

> setwd("C:/Programming")
> file<-"C:/Programming/mydata_readmorphologika.txt"
> mydata<-read.morphologika(file=file,matrix=T)
> head(mydata$dataframe)
  ID collector    date genus species     1      2      3      4      5      6      7      8      
1  1       EOC Jan2012     A       a 0.595 0.1679 0.2232 0.5028 1.2920 0.4237 0.5130 0.2047 
2  2       EOC Jan2012     B       b 0.743 0.3662 0.4697 1.3998 1.7515 1.8165 0.8139 2.8590 

on the other hand, "mydata$coords" provides one only with the landmarks coordinates.



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