Ieremie Ioan
Ieremie Ioan
In the implementation, a random position of the sequence is used to compute the NCE loss. The paper mentions that the GRU output at each step is used to predict...
The paper does not mention the use of Batch Normalization in the case of the audio task. In the case of the Vision task, it mentions that '' We did...
In the calculation of the NCE loss, the softmax does not have a dimension to compute the result and by default, PyTorch uses dim=1 with 2D input. The Loss in...
PSSM has length 20 and not 21 as mentioned in the readme file
### Setup I am reporting a problem with Biopython version, Python version, and operating system as follows: ```3.10.4 (main, Mar 31 2022, 03:38:35) [Clang 12.0.0 ] CPython macOS-10.16-x86_64-i386-64bit 1.79 ```...
## Expected Behavior Cluster Uniref90 after it has been translated into a 5-letter alphabet. Cluster it to 90% identity and 80% overlap (similar to how Uniref90 was initially generated). ##...
When computing the iface for parts of the protein complex, which interact with each other, the complex surface should only contain the chains of interest. For example, Complex_id1 has 5...
I have looked at the dateset in more detail and found many examples of protein sequences that are the same. In the paper it is mentioned that the similarity is...
Could you please provide me with the implementation for the downstream head (Enzyme task) used for the Bepler&Berger model? I have been trying to replicate the results, but I fail...
From what I understand the values inside the supplementary information are the average over 10 runs with random seeds. If this is the case, why are there no errors added?...