[adegenet-forum] Problems with genind object

[Thibaut Jombart]

Yes, we need more information. We don't know what 'y' is here, or what
command line you called in the first place.

Best
Thibaut

--
Dr Thibaut Jombart
Lecturer, Department of Infectious Disease Epidemiology, Imperial College London
Head of RECON: repidemicsconsortium.org
WHO Consultant - outbreak analysis
sites.google.com/site/thibautjombart/
Twitter: @TeebzR
+44(0)20 7594 3658


On 3 November 2017 at 08:12, Roman Luštrik <roman.lustrik at biolitika.si> wrote:
> Can you provide a small example we can work on?
>
> Cheers,
> Roman
>
> ----
> In god we trust, all others bring data.
>> Zahtevaj IJZ na https://kurc.biolitika.si
>
> ________________________________
> From: "Logan Clark" <clarklc at appstate.edu>
> To: adegenet-forum at lists.r-forge.r-project.org
> Sent: Thursday, November 2, 2017 8:10:03 PM
> Subject: [adegenet-forum] Problems with genind object
>
> Hi, I am working on a project involving microsatellite data in a relatively
> standard diploid species. I have 141 samples across 17 loci and my alleles
> formatted as 168/184 for a heterozygote and 168/168 for a homozygote. I have
> been able to transfer my data from a .csv file to a dataframe then to a
> genind object using df2genind. I have been able to run other statistics on
> the genind object I have created such as HWE, but I am trying to use the
> chao_bootstrap function in mmod with this object and I keep getting the
> error message
>  "Error in tapply(y, pop(x), mean, na.rm = TRUE) :
>   arguments must have same length"
>
> I'm not really sure what this means or how to fix it. I am trying to run the
> individuals as one population, but I am not sure if that is have any effect.
> Should I create another vector of 1's to code for the population and
> concatenate the two? Does anyone have any advice on how to solve this
> problem? Thank you in advance for any help with this issue.
>
> --
> Logan Clark
> Graduate Student
> Biology Department
> Appalachian State University
> P: 252-370-0034
> E: clarklc at appstate.edu
>
>
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