midomtoolbox 0.2.0

Shape, convert, summarize and analyse MIDOM deidentification Protocols

MIDOM Toolbox

Shape, convert, summarize and analyse MIDOM deidentification Protocols.

⚠️ Major version 0. Not feature complete. Still testing out the interface

• Works with MIDOM Protocols (https://pypi.org/project/midom/)
• Converts to CTP scripts
• Generates summaries

installation

pip install midomtoolbox

usage

To take a MIDOM protocol json file and render to markup format:

from midom.components import Protocol    
from midomtoolbox.render import render_protocol

# load protocol
with open("/tmp/ctp_pipeline.json") as f:
    protocol = Protocol.model_validate_json(f.read())

# render
with open("/tmp/output.md", "w") as f:
    f.write(render_protocol(protocol))

For other examples, see /examples

planned features

• Characterizes according to protocol taxonomy
• Wizzard-based Protocol generation