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Hi, in augur align you are calling --fill-gaps which is just doing
```
_seq = _seq.replace('-', 'N')
```
so that in the nextstrain tree everyone [gets a FCS](https://nextstrain.org/flu/avian…
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Conditions: 972 h-cells were grown in Edinburgh Minimal Medium (EMM) at 32 °C
I'm trying to establish the best way to get the cluster peak site into Artemis.
headings are
Systematic …
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* **PTHR ID & PTN node:**
PTN000175315 (PTHR11599) & PTN000175383 (PTHR11599)
* **Sequences with problematic annotation (ID + gene/protein name):**
FBgn0032596 | Prosbeta4 (Q9VJJ0)
FBgn0031442 |…
sjm41 updated
2 years ago
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Hi there!
Thanks for your great work.
I was testing out the update and came along an issue while running on the signalp5 benchmark set during the marginal conflict resolution step.
This sequenc…
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**Describe the bug**
I received the error "Process `signalp_v6 (1)` terminated with an error exit status (1)" during the second iteration of signap_v6. Although I included a much larger chunk of the …
tdymc updated
2 years ago
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```
[ 2021-12-16 17:41:12 ] moPepGen callVariant started
[ 2021-12-16 17:42:37 ] Variant file /hot/users/yiyangliu/MoPepGen/Parser/Fusion/arriba-2.1.0/CPCG0100.winu.gvf loaded.
[ 2021-12-16 17:48…
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Hi,
Actually, I have made attempts to reproduce the panel "Position from annotated cleavage site(nt)" from Supplementary Figure 1 in the paper . I'm curious what kind of work bag do you use.
if p…
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## Conclusion
According to discussion below, we'd like to report PAS as single nucleotides, i.e. their start and end coordinates differing by 1. The execution workflow output/ summary workflow input …
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Right now cleavage sites are calculated on a per-eptiope basis. However, this doesn't give accurate results.
Cleavage predictions depend on sequence context (flanking amino acids). It appears that …
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I'm trying to run CRISPRessoWGS with some data obtained by Nextera of specific amplicons. Tried both the amplicon mode and the WGS mode, and the WGS mode aligning to the genome or to the amplicons, bu…