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Hi Ziheng, Tomas -
Forgive me for asking such a dumb question but I am simply trying to understand the posterior branch lengths (taus) and relate these (roughly) to standard genetic distances. My u…
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Dear Torsten,
I want to calculate genetic distances between sequences that contain ambiguous bases, i.e. W, S, Y and so on. If I am not mistaken snp-dists can either ignore these positions or count…
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Now, in the aplication RNAFFE, antivirals are selected and then gouped by type
(NRTI, NNRTI, PI). It should be in the opposite way. First, antivirals should
be gropued by type, and then, they sh…
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Dear Armando/GONe team (yet again 😊),
I’m having an issue trying to run GONe with above 70.000 SNPs pr. chromosome.
GONe runs perfectly on my ped and map files when I set maxNSNP=70000 (or …
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Hi, I'm getting the following error when I try to calculate distances. Not sure if this is a library compatibility problem?
$ python
Python 3.6.10 |Anaconda, Inc.| (default, Jan 7 2020, 1…
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Dear Nathaniel,
I was wondering if and how can I compare the mlpe and generalized_wishart (gwis) output of my analyses.
I am trying both for each of the tested models.
mlpe always show much lower f…
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The goal of this issue is mostly that of a "feasibility check". Because many of the goals of TaxI3 (in the all-against-all mode) are related to those of ASAP (and ABGD, but we will focus on ASAP which…
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We need to properly model genetic/genomic landmark locations.
For example: (current ZFIN refactor)
http://zfin.org/action/mapping/detail/ZDB-SSLP-980528-17
In ZFIN, we have mappings of different fea…
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Good day!
I have a question regarding Admixtools 2. I am interested in the following: how to calculate the genetic distance between populations or individuals so that this distance is linear and rel…
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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…