MiScan 0.1rc1

Maxout-inferred SNV-based cancer prediction model

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'
)