Tony Zeng comments

Results 5 comments of


                                            Tony Zeng

Enhancement request: use xgboost as base learner

@ivan-marroquin I think this should work--looks like the learning rate has an effect even when there is just one tree, and the way this interacts with NGBoost's learning rates might...

Could pangolin predict the splice site ab initio?

Yes, please see this script: [https://github.com/tkzeng/Pangolin/blob/main/scripts/custom_usage.py](https://github.com/tkzeng/Pangolin/blob/main/scripts/custom_usage.py) You will need to obtain the sequence around the sites you are interested in predicting. For this use case, you can take the mean...

widget don't display after an event (Could not create view Error)

> we don't have the right code in place to support ipywidgets dynamically creating other widgets. @parente Is there a solution for this yet?

missing 1 required positional argument: 'type_code'

Hi, Sorry about this, it looks like installing PyVCF with pip is broken. Could you follow the updated installation instructions on the README? Thank you!

Prediction of 5'ss usage and 3'ss usage

Hi, Pangolin was trained to predict splice sites without distinguishing between 5' and 3' sites, so that information is not actually present in the test set. If you would like...