User: User000

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User000260
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Posts by User000

<prev • 186 results • page 1 of 19 • next >
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Comment: C: Neighbor Joining tree visualization
... hi,i sometimes use ape as well to produce a NJ tree, but my question was ho to visualize complex nj trees. ...
written 5 months ago by User000260
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Neighbor Joining tree visualization
... Hello, Could anybody suggest a tool to visualize a complex Neighbor Joining with many individuals? Thank you ...
R tree nj written 5 months ago by User000260 • updated 5 months ago by RamRS20k
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Comment: C: Change nexus textlabels
... thanks! this prints me the headers but is not replacing in the original file... ...
written 8 months ago by User000260
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Change nexus textlabels
... Dear all, Any suggestion how to change the tip labels of a phylogenetic tree in nexus format? in R? bash script? ...
R nexus tree bash written 8 months ago by User000260 • updated 8 months ago by Anima Mundi2.4k
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Comment: C: DAPC different clustering results
... So, if I run max.n.clust = 20, how can I get the membership values then for K 2-20? ...
written 9 months ago by User000260
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Comment: C: DAPC different clustering results
... yes, but I want to get the consistent results, similar to admixture, like from K = 2 to K = 20 I want to see consistent results of species separating at the end in 20 different clusters...I hope I could explain myself. ...
written 9 months ago by User000260
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Comment: C: DAPC different clustering results
... update: for n.clust = 20 I did set.seed(20), and it worked 3 times, for n.clust = 19, should I use also set.seed(20)? ...
written 9 months ago by User000260
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Comment: C: DAPC different clustering results
... No, I have two different versions, and I am interested in one of them, the problem is I want consistent results for all runs from K 2 to K 20. I already know that I want to stop at K 20, and not go further. So I literally have to re-run the same command line 50 times? Isn't n.start = 1000 doing thi ...
written 9 months ago by User000260
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DAPC different clustering results
... Dear all, I am using find.clusters and DAPC to my SNPs data. I am interested in K 2-20. However, the clustering results are different whenever I re-run the code on the same dataset, I guess this is due to k-means algorithm that find.clusters is using. Do you know it if possible to find an optimum ...
R k-means dapc find.clusters written 9 months ago by User000260
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Comment: C: Performing fast bootstrap in R using ape package
... I am running it also on a cluster with 10 cores (I don't know exactly how many cores I am allowed to use) and is still running also 3 days. Without bootstrap it takes me around 1-2 hours. Thank you a lot for the advice, I am now running it,let's see ...
written 9 months ago by User000260

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