hivtrace

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stevenweaver

how to define the threshold?

6

@stevenweaver @spond

liamxg

how to load the metadata?

4

liamxg

It might be desirable to 1. Report the diameter of any cluster, i.e. `max (k, n in cluster) = distance (k, n)`. 2. Permit, optionally, to reduce/split clusters so that...

spond

To run: ``` hivtrace -i examples/trueAppend/Network-New-4.fas -t 0.04 -r ./test/rsrc/HXB2_1497.fasta -a skip -g 0.015 -m 500 --input-old-dists examples/trueAppend/Network-New-3.tn93.csv --input-old-fasta examples/trueAppend/Network-New-3.fas --true-append --skip-alignment ```

stevenweaver

Hi Steven, I am encountering an issue while running hivtrace with the following command: hivtrace -i /home/mj/input.fas -a resolve -r HXB2_prrt -t .015 -m 500 -g .015 --log /home/mj/hivtrace.log The...

arya-aa

Dear @stevenweaver, When I run `hivtrace_viz 51.fas.results.json`, the webpage is bank, please see below: Best, Liam

liamxg

run error

2

Dear Prof. @spond, Please see below: ``` hivtrace -i TEST.FASTA -a resolve -r HXB2_prrt -t .015 -m 500 -g .05 -c Traceback (most recent call last): File "/Users/liam/opt/miniconda3/bin/bealign", line 16,...

liamxg

Dear Steven, hello! An analysis using the HIV trace tool has recently been needed. However, I'm having some difficulties trying to install the tool and would love your help. I'm...

liusu0825