[adegenet-forum] df2genind function unexpected behavior

[Tagliamonte,Massimiliano S]

Thank you for your help, Roman,


By asking me to provide an example you made me realize something. I tried again this morning, with exactly the same commands, and could not reproduce  the issue. This is weird. It is not the first time it happens though, i.e. getting unexpected behavior in R which I could not replicate after rebooting. I have no idea what the cause could be. Some of the packages I had loaded yesterday (apart from Adegenet) were not loaded today. I guess I'll have to be even more paranoid and check that each step of my analysis does what is supposed to be doing.


Cheers,

Max


Massimiliano S. Tagliamonte
Graduate Student
University of Florida
College of Veterinary Medicine
Department of Infectious Diseases and Pathology
________________________________
From: Roman Luštrik <roman.lustrik at biolitika.si>
Sent: Tuesday, January 3, 2017 5:44 PM
To: Tagliamonte,Massimiliano S
Cc: adegenet-forum at lists.r-forge.r-project.org
Subject: Re: [adegenet-forum] df2genind function unexpected behavior

Can you provide a reproducible example?

FWIW, you can use accessor functions like `tab(genind_obj)` or access the other slot through `other(genind_obj)`, e.g.

library(adegenet)

data(nancycats)

other(nancycats)$xy

or assigning things

other(nancycats)$xy <- xy_object

To access genotypes, you can use

tab(nancycats)


Cheers,
Roman

----
In god we trust, all others bring data.

________________________________
From: "Tagliamonte,Massimiliano S" <mstagliamonte at ufl.edu>
To: "adegenet-forum at lists.r-forge.r-project.org" <adegenet-forum at r-forge.wu-wien.ac.at>
Sent: Tuesday, January 3, 2017 10:36:20 PM
Subject: Re: [adegenet-forum] df2genind function unexpected behavior


Update:

OK, I have replaced the dots (".") in the names with "_", now the order of the isolates is maintained. I'll have to keep in mind this behavior. I guess it's a bad idea to introduce special characters in my data in R.


Sincerely,


Massimiliano S. Tagliamonte
Graduate Student
University of Florida
College of Veterinary Medicine
Department of Infectious Diseases and Pathology

________________________________

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