Hello everyone,
I would like to use the coancestry-based method to assess some population contributions to overall genetic diversity, as developed by Caballero & Toro (Conservation Genetics 3: 289–299, 2002) and implemented in the software MolKin by Guttiérez (Journal of Heredity 96, Issue 6, 2005)
The only problem is that MolKin only runs under Windows 95/98/200/TN/XP. Before loading a virtual machine to make it work, I was wondering if you would know about another soft or, even better, a R package that would help to implement the Caballero & Toro approach? I don't feel quite confident yet to implement this on my own... better check!
Thank you all and a great year 2018,
Article Characterization and conservation of genetic diversity in su...
https://academic.oup.com/jhered/article/96/6/718/2187633
DNATools maybe will help you. Is a R Package, but I'm not completely sure will do everything like Caballero & Toro... But, in their paper they have every equation and such information, maybe just make your own functions with those equations.
Thank you very much Alejandro for your answer! I ended up running Windows XP on my computer to install Molkin but I am glad to know about the 'DNATools' package.
All the best!
Chrystelle
I think indeed the most simple way is too switch to XP mode... Just in case, I think I had some old excel sheet somewhere doing the Caballero & Toro approach, but it may not be usable depending on the size of your data set...
My pressure Chrystelle, good luck with that!
Gregoire, its why I strongly recommend to use R for it, because you just need to add the equations (maybe is a little hard to do, but you'll do it just once) and then run any data set without problem. But of course, the other way (like in a lot of softwares) is to switch to WinXP.
Best!
Alex.
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