Classify somatic/germline mutations by deep neural networks.
There is also a version for Julia.
- Python 3.5+
- Keras with TensorFlow by their guide
pip install pysam
$ python predict.py ../model/model2.h5 input.bam input.txt > output.txt
By default it accept the
txt file generated by AnnoVar.
train new models
python collect_data.py cfDNA.bam gDNA.mpileup out.image out.txtfor each sample to get a list of
python model1.pyto train the corresponding model.