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@jhnwu3 jhnwu3 commented Aug 4, 2025

This pull request adds documentation for the new interpret module in PyHealth, which provides tools for interpreting deep models post-hoc. The changes include updates to the main documentation index and the addition of detailed documentation for the pyhealth.interpret.methods.chefer method.

Updates to Documentation:

  • docs/api/interpret.rst: Added a new section for the Interpret module, introducing its purpose and linking to the pyhealth.interpret.methods.chefer documentation.

  • docs/api/interpret/pyhealth.datasets.interpret.methods.chefer.rst: Added detailed documentation for the pyhealth.interpret.methods.chefer method, including a description of its purpose (interpreting transformer models), a reference to the associated research paper, and an autogenerated class reference.

Changes to Index:

  • docs/index.rst: Updated the main documentation index to include the new api/interpret section.

@jhnwu3 jhnwu3 requested a review from Copilot August 4, 2025 00:54
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@jhnwu3 jhnwu3 added Highlight for TAs to highlight documentation Improvements or additions to documentation and removed Highlight for TAs to highlight labels Aug 4, 2025
jhnwu3 and others added 2 commits August 3, 2025 21:20
nice catch

Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
@jhnwu3 jhnwu3 requested a review from Copilot August 4, 2025 02:22
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Pull Request Overview

This PR introduces documentation for PyHealth's new interpret module, which provides tools for interpreting deep learning models post-hoc. The changes add comprehensive documentation structure and content for model interpretation methods.

Key changes:

  • Added documentation for the interpret module with focus on the Chefer method for transformer interpretation
  • Integrated the new interpret documentation into the main documentation index
  • Created detailed method documentation with research paper references

Reviewed Changes

Copilot reviewed 3 out of 3 changed files in this pull request and generated 2 comments.

File Description
docs/index.rst Added interpret module to the main documentation toctree
docs/api/interpret.rst Created main interpret module documentation page with overview and method links
docs/api/interpret/pyhealth.interpret.methods.chefer.rst Added detailed documentation for the Chefer interpretation method with paper reference
Comments suppressed due to low confidence (1)

Comment on lines +1 to +4
Interpret Module

PyHealth provides specialized tools for interpreting deep models post-hoc.
===============
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Copilot AI Aug 4, 2025

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The title format is inconsistent with RST conventions. The title should be followed by an underline of equal signs matching the title length, and the description should come after the underline.

Suggested change
Interpret Module
PyHealth provides specialized tools for interpreting deep models post-hoc.
===============
Interpret Module
================
PyHealth provides specialized tools for interpreting deep models post-hoc.

Copilot uses AI. Check for mistakes.

Interpret Module

PyHealth provides specialized tools for interpreting deep models post-hoc.
===============
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Copilot AI Aug 4, 2025

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The underline length (15 characters) does not match the title 'Interpret Module' (16 characters including space). RST requires the underline to be at least as long as the title.

Suggested change
===============
================

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