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It seems like this is something the students were supposed to implement. Why is it in the code we are giving them?
https://github.com/CSE587A-permanent-org/cse587Autils/blob/50e8bf2983eb74f8f49be4c…
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https://github.com/cositools/cosipy/blob/f9f6043b2843bf25e716cf93a7f7f788d905883b/cosipy/threeml/COSILike.py#L154
In newer version we use nansum, which handles the nan, but it would be better to no…
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After things are reconciled, we need to add support for preference tuning pipelines
Introduce 3 pipelines:
- Data annotation routing > route samples for preference tuning and annotate
- Student M…
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During my research I have encountered what might be a bug or perhaps a problem in the model description in AliSim. The problem arises when simulating sequences specifying a discretized gamma distribut…
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Right now it is implemented just for the linear KF.
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Hi!
I wanted to calculate pseudo likelihoods for my amino acid sequences using antiberty. I run into the following error when trying to use the `pseudo_log_likelihood` function:
_nll = torch.nn.…
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## Feature
Support for Custom Bin Width in `EntropyBottleneck`
## Motivation
So far only bin width equal to 1 is considered, but would be good to have this as tunable option.
## Additional context…
ghost updated
2 weeks ago
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Hello,
I'm encountering this error for some files with Beast v2.7.6. I found that there had been a similar issue in Beast 2.0.2: https://groups.google.com/g/beast-users/c/xrvcxeU4wwA
```
At sam…
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Could you the synthetic control combined with the Poisson pseudo-maximum-likelihood (PPML) estimator? And do you know of any example of papers that uses this approach?
For context: I wish to run a …