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In case anyone else was still working on the Week 12 assignment and running into issues with the code, I believe the code is depreciated for the current version of the hierfstat package. This is how I…
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@hlapp @zkamvar
I am having problems with the AMOVA analysis of sequence data.
FIRST APPROACH USING hierfstat:
Problem: when trying to convert a genind object to hierfstat, it gives me the followin…
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`hierfstat` provides a well trusted gold standard for these. An option would be to replicate this tutorial:
https://popgen.nescent.org/DifferentiationSNP.html
in `tidypopgen`, making sure that w…
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Hello,
I've computed Fst among groups with both hierfstat's varcomp.glob() and vcftools --weir-fst-pop. Each give different answers even though both use the WC formula. I'm wondering if the reason …
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¿Qué programa o paquete usarás para detectar outliers?
En cuanto a Hierfstat, haremos algunos ejercicios en clase que espero te sean de utilidad.
Finalmente, para que conozcas cambios sinónimos y n…
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@emmanuelparadis @jgx65 @zkamvar @KlausVigo
Shall we coordinate for the releases of our packages?
From the most 'low level' (required by a lot of packages) to the high levels:
_ape, adegenet, pegas,…
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Several of the packages in the rpopgen Docker image have been (and will continue to be) updated since the last build. As a complicating factor, some of these updates are not yet on CRAN and thus would…
hlapp updated
8 years ago
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Hi
I am trying to run an fst analysis and I got the following error: Error in fstat(b, fstonly = T) : could not find function "fstat".
I installed the package hierfstat and loaded it, but it st…
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Hi,
I used vcf_calc.py to calculate het-fis, but I got very odd results. I'm working with a highly selfing plant, and nearly all individuals had negative or very low values. The only exception was…
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I discovered today that the function gstat.randtest() is missing in the latest two releases of the package. Was there a name change or have you removed the function for some reason?