Maxout-inferred SNV-based cancer prediction model
Project description
MiScan_core
Maxout-inferred SNV-based cancer prediction model | Apache Software License
Tutorial
installation
- install through
pip
pip install MiScan -i https://pypi.python.org/pypi
- install through docker
docker pull jefferyustc/miscan_command_line:v0.2.1
usage-commandline
miscan --vcf /Users/jeffery/Downloads/SRR5447191.combined.filtered.vcf -o outputs --weight /Users/jeffery/workspace/projects/outputs/_MiScan_weights.hdf5
or with below command:
python -m MiScan --vcf /Users/jeffery/Downloads/SRR5447191.combined.filtered.vcf -o outputs --weight /Users/jeffery/workspace/projects/outputs/_MiScan_weights.hdf5
if with docker:
docker run --name miscan_cli_test -it -v /path/to/data:/path/in/docker 9fd
MiScan -o test_outputs --vcf ../model/SRR5447191.combined.filtered.vcf --weight ../model/_MiScan_weights.hdf5
usage-script
from MiScan import miscan_main
miscan_main(
outDir='./outputs',
inVcf='/Users/jeffery/Downloads/SRR5447191.combined.filtered.vcf',
model_weight='/Users/jeffery/workspace/projects/outputs/_MiScan_weights.hdf5'
)
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