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Briefly comment on this issue why you are interested in this mini-project.
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Hello!
I ran snippy-multi on a dataset of about 20 bacterial isolates (*.fasta assemblies) within the same genus (_Enterobacter_ spp.). The core genome length (from core.aln) was around 273,000 base …
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From @petrelharp:
> think the next thing to do is to figure out what we want to use it for - like, what things want to be computed? And, then, see if they can be computed easily this way. The que…
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Here is an accessory service that I think is needed in order to make widespread ToL re-use feasible: for a taxon T of interest to me, and a number N that is a manageable number for me (the end user), …
arlin updated
10 years ago
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I was trying to see the result of PD rarefaction using phyloRarefy as used by [Peralta et al (2015)](https://www.ncbi.nlm.nih.gov/pubmed/25279836), but realized that the function cannot rarefy the my …
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These 2 phylogenies are with and without _Wollemia nobilis_. We ran phylonext for both of these phylogenies. All parameters were default except for type of phylogenetic tree labels (Latin) family (Ara…
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Hi @fasincar
I am trying to run phylophlan for the first time. I would like to get phylogenetic tree for Xanthomonas (.fna). I am using following 2 commands:
`phylophlan_write_config_file -d a -o gr…
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# Increasing the Realism of Our Simulations
One research question we want to address in this project is: **Are true trees categorically different from MP trees in a predictable way?** If the answer…
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Hello
I am teaching myself how to run panX using TestSet. Here is the command I run exactly following the instructions.
./panX.py -fn data/TestSet/ -sl TestSet -t 32 > TestSet.log 2> TestSet.err
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@DaliangNing (use 9.1 step nalysis ) Hello professor, I have the following error when running the program. How should I solve it?
Now summarizing method=CbMPDiCbraya i=1 j=1. Sat Mar 9 23:34:20 …