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Hi,
It could be interesting to extract the number of TAG, TAA, TGA used as STOP codon from Prodigal CDS prediction.
@ylana Do you think you can do that? You can take inspiration from the script `s…
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In the following code, `foo` has an `Optional[A]` argument and does a check on it to see if is `None` or defined:
```py
class A:
pass
def foo(maybe_a: Optional[A]):
if maybe_a:
…
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Please could the the docs include information on how to interpret the output of site_annotations()? I can't work out what the different levels of codon_nonsyn mean (effect?). I also can't quite work o…
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This is a feature request/enhancement (tangentially related to issue #60).
I was wondering if there are plans to incorporate --junc-bed and --junc-bonus parameters in Miniprot, similar to the curre…
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Would like to map all codons/codon pairs in a single plot in order to visualise and identify inhibitory codons/codon pairs, e.g. a scatter plot. This will require an enrichment score for codons/codon …
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Needed for merge:
- [x] Fix bugs issues #78 and #77
- [x] Update output (iss #80)
- [ ] Update examples
- [x] Update readme (iss #66)
- [x] Merge - Erin to do once rest is complete
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Both Codon and [Triton](https://github.com/openai/triton) can generate CUDA kernels. What are the differences between the two when it comes to GPU programming?
Thanks!
PS. This may be something …
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The Protein Translation exercise deviates from the upstream canonical data by including additional proteins not listed in the instructions. Generally, that's fine, but in this circumstance, students w…
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Hi,
- I have noticed that when run on protein mode, BRAKER v3.0.3 will often have two identical transcripts for many genes. One created by AUGUSTUS, and one created by Genemark.hmm3.
- The only…
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Hi, to start I have really enjoyed `eukcc`, so thank you!
I have recently discovered that if my protein files include stop codon marks (`*`) my job fails with the following error message:
```
…