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Hi Dr. Shumate,
I'm actually having the same problem as user @pur80a downthread in issue #127 but I'm opening a separate issue because I don't believe that their problem is the same as the origina…
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grep couldn't find anything if used non UTF8 codepage
Example: https://youtu.be/OMs5XNwggTQ
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#### Version 8.8
#### Operating system: all
#### Description of the problem
Most uses of `**` in the docs seem wrong. Some examples:
```
./proof-engine/tactics.rst\01528: is **IH**.
Should…
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Hi I'm trying to run nPhase on a tetraploid yeast genome I seqeunced with PacBio HiFi reads.
Here is my code:
`nphase pipeline --sampleName trialRun1 --reference s288c.fa --longReads pacbioHiFi…
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Hi team!
The paper and the accompanying codebase are really great! We are trying to use S4 for a different problem and there are a lot of engineering details that seem to be affecting the training:…
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Unicode Emoji 5.0 added variation sequences for a few dozen emoji-default characters because they map to entities in the Wingdings/Webdings sets. Twemoji still does not recognise those, which has thre…
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I'm aware questions are preferably answered at Biostars, however, I saw older questions not being addressed there while being here. If this is not convenient just notify me and I will immediately tran…
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**Description** Transferred from: https://github.com/sars-cov-2-variants/lineage-proposals/issues/1619
**Sub-lineage of:** KP.2.3 (S:∆S31, H146Q, R346T, F456L, V1104L)
**Earliest sequence:** 2024-5-…
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Hello.
I wanted to create this issue for people to shear their ideas with eachother.
For example in one of my earlier attempts i wanted to awoid some of the flaws of ftft by doing 2 in total and no…
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Sub-lineage of:XDR.1
Earliest sequence:2024-06-06|Brazil|EPI_ISL_19284486
Most recent sequence:2024-07-09|USA|
Countries circulating:Brazil(1), Switzerland(1), USA(1)
Sequences:3
[UShER Tree](h…