[adegenet-forum] scaleGen error using method="binom"

[Roman Luštrik]

Hi, 

I have looked at the sources on GitHub but they don't reveal anything interesting. Digging up stuff from 2013 on CRAN, though, shows that the method (R matches "met" to this argument) has been omitted in the 1.3-8 version from May 2013. This argument is thus no longer available, unfortunately the documentation hasn't followed suit yet. I will open a ticket on GitHub so that this can be resolved, once and for all. 

Cheers, 
Roman 

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


From: "Stephen Attwood" <swahuaxi at yahoo.com> 
To: adegenet-forum at lists.r-forge.r-project.org 
Sent: Monday, June 13, 2016 3:02:24 PM 
Subject: [adegenet-forum] scaleGen error using method="binom" 

Dear All 

I am having a problem using scaleGen, so I tried going back to the adegenet tutorial and I get the same error: 

data(microbov) 
obj <- genind2genpop(microbov) 
X1 <- scaleGen(obj) 
X2 <- scaleGen(obj,met="bin") 
Error in .local(x, ...) : unused argument (met = "bin") 

I get the same error with my own data (I also tried method = "binary", method = "bin", etc) 

X1 is as expected, but X2 is obviously not assigned 

I have the following packages loaded: 
library(ade4) 
library(adegenet) 
library(spdep) 
library ("OpenStreetMap") 
library(ape) 

Using adegenet 2.0.2 and R version 3.2.5 (2016-04-14); platform x86_64-pc-linux-gnu 

If someone could suggest what I might have overlooked, that would be a great help - I am probably missing a package somewhere. I thought it would be a common problem, but I haven't found it on Google - perhaps the solution is so simple. At the moment it is eluding me. 

Thank you. 

Stephen 

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