selene
selene copied to clipboard
FunctionLab
a framework for training sequence-level deep learning networks
A user should be able to get a list of important "subsequences" for an input sequence for every genomic feature. These subsequences will be built based on the mutated base...
If there is strand information for the genomic features dataset, we should be able to handle this. We may add a parameter about strandedness (this relates to the "wrapper non...
I'm not sure how exactly this would work, but the idea could be very useful for data that is in a different format (SQL or just easily loaded into pandas)....
Dear Selene/Sei developers, thank you for the colossal work you've undertaken. I have a question regarding the variant effect prediction functionality of Sei model. I am using the model to...
Hello! I found an AI-Specific Code smell in your project. The smell is called: Columns and DataType Not Explicitly Set You can find more information about it in this paper:...
I am wondering when you are planning to update the versions to the latest Python and Pytorch?
…ndom suffix to output directory name #### Reference Issues/PRs #### What does this implement/fix? Explain your changes. #### What testing did you do to verify the changes in this PR?
At present, Selene does not save a copy of python file containing the model source code. This seems like an oversight; the output directory contents alone should be enough to...
I've found that in the case of `train_model`, none of logging handlers ever close (i.e. `selene_sdk.train_model.log`, `selene_sdk.train_model.train.txt`, and `selene_sdk.train_model.validation.txt`). I assume this happens in `evaluate_model` too but I haven't looked...
Metadata
Owner
Metadata
a framework for training sequence-level deep learning networks