.gitignore
.pre-commit-config.yaml
.python-version
CITATION.cff
CODE_OF_CONDUCT.md
CONTRIBUTING.md
LICENSE
README.md
pyproject.toml
uv.lock
.github/PULL_REQUEST_TEMPLATE.md
.github/dependabot.yml
.github/release-drafter.yml
.github/ISSUE_TEMPLATE/issue.yml
.github/workflows/draft-release.yml
.github/workflows/publish-docs.yml
.github/workflows/publish-pypi.yml
.github/workflows/run-tests.yml
docs/src/conf.py
docs/src/examples.md
docs/src/index.md
docs/src/python-api.md
docs/src/examples/cu_anschutz_quantum.ipynb
examples/cu_quantum.yaml
examples/cu_quantum_report.md
examples/cu_topics_all_departments.yaml
examples/cu_topics_all_departments_report.md
examples/cu_topics_dbmi.yaml
examples/cu_topics_dbmi_report.md
examples/cu_topics_quantum_bioinformatics.yaml
examples/cu_topics_quantum_bioinformatics_report.md
src/notebooks/example_notebook.ipynb
src/notebooks/example_notebook.py
src/scitrail/__init__.py
src/scitrail/cli.py
src/scitrail/config.py
src/scitrail/disambiguation.py
src/scitrail/main.py
src/scitrail/models.py
src/scitrail/openalex_client.py
src/scitrail/pipeline.py
src/scitrail/report.py
src/scitrail/summarizer.py
src/scitrail.egg-info/PKG-INFO
src/scitrail.egg-info/SOURCES.txt
src/scitrail.egg-info/dependency_links.txt
src/scitrail.egg-info/entry_points.txt
src/scitrail.egg-info/requires.txt
src/scitrail.egg-info/top_level.txt
tests/conftest.py
tests/test_cli.py
tests/test_config.py
tests/test_main.py
tests/test_openalex_client.py
tests/test_pipeline.py
tests/test_report.py
tests/test_summarizer.py