Trained Models and Example Input Data

[mflevine]

Hi, I was just reading the associated Nature paper, which says that pre-trained models used in the paper can be found at this repository. Can you point me to where I can find these as well as an example of the input data so that I can give the model a try.

[WayneJiao]

Hi, the model has been added. However, due to the file size limit, the keras files are in pieces. You may need to merged them after downloading.

[brucemoran]

Hi Max,

did you ever get this working?

Particularly interested in --input_file format for DNN-Model/predict_cancer.py.

Bruce

[mflevine]

Hi Bruce,
I did not, while they provided the model, they did not provide example input data or script to get the input from vcf.

[brucemoran]

Shame, thanks for coming back to me.

[ningwei-wei]

Hi, the model has been added. However, due to the file size limit, the keras files are in pieces. You may need to merged them after downloading.

hi, i merge them by 'cat ensemble_model.keras.a* > ensemble_model.keras',but i can't load model. the error is "OSError: SavedModel file does not exist at: /public/slst/home/ningwei/TCGA/ensemble_model.keras/{saved_model.pbtxt|saved_model.pb}"

do you know where i am wrony, and what i should do??
thank you very much！

[brucemoran]

Hi,

I've worked with the authors to get this working as a tool, see my fork.

Any issues let me know.

Bruce.