tooluniverse 0.1.1__tar.gz → 0.1.3__tar.gz

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  1. tooluniverse-0.1.3/LICENSE +21 -0
  2. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/PKG-INFO +22 -6
  3. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/README.md +20 -4
  4. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/setup.cfg +1 -2
  5. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/openfda_tool.py +1 -1
  6. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/PKG-INFO +22 -6
  7. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/SOURCES.txt +1 -0
  8. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/requires.txt +0 -1
  9. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/pyproject.toml +0 -0
  10. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/__init__.py +0 -0
  11. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/base_tool.py +0 -0
  12. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/__init__.py +0 -0
  13. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/fda_drug_labeling_tools.json +0 -0
  14. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/fda_drugs_with_brand_generic_names_for_tool.py +0 -0
  15. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/monarch_tools.json +0 -0
  16. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/opentarget_tools.json +0 -0
  17. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/data/special_tools.json +0 -0
  18. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/execute_function.py +0 -0
  19. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/graphql_tool.py +0 -0
  20. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/restful_tool.py +0 -0
  21. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/utils.py +0 -0
  22. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/dependency_links.txt +0 -0
  23. {tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/top_level.txt +0 -0
tooluniverse-0.1.3/LICENSE ADDED
@@ -0,0 +1,21 @@
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+ MIT License
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+
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+ Copyright (c) 2025 Artificial Intelligence for Medicine and Science @ Harvard
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+
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+ Permission is hereby granted, free of charge, to any person obtaining a copy
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+ of this software and associated documentation files (the "Software"), to deal
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+ in the Software without restriction, including without limitation the rights
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+ to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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+ copies of the Software, and to permit persons to whom the Software is
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+ furnished to do so, subject to the following conditions:
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+
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+ The above copyright notice and this permission notice shall be included in all
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+ copies or substantial portions of the Software.
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+
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+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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+ IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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+ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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+ AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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+ OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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+ SOFTWARE.
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/PKG-INFO RENAMED
@@ -1,22 +1,22 @@
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  Metadata-Version: 2.2
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  Name: tooluniverse
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- Version: 0.1.1
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+ Version: 0.1.3
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  Summary: A collection of biomedical tools designed for use by Agentic AI.
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  Home-page: https://github.com/mims-harvard/TxAgent
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  Author: Shanghua Gao
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  Author-email: shanghuagao@gmail.com
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  Requires-Python: >=3.6
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  Description-Content-Type: text/markdown
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+ License-File: LICENSE
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  Requires-Dist: requests
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  Requires-Dist: numpy
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- Requires-Dist: graphql
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  Requires-Dist: graphql-core
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  # ToolUniverse
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  [![ProjectPage](https://img.shields.io/badge/Page-TxAgent-red)](https://zitniklab.hms.harvard.edu/TxAgent)
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- [![PaperLink](https://img.shields.io/badge/PDF-TxAgent-red)]()
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- [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)]()
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+ [![PaperLink](https://img.shields.io/badge/Arxiv-TxAgent-red)](https://arxiv.org/pdf/2503.10970)
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+ [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)](https://pypi.org/project/txagent/)
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  [![ToolUniverse-PIP](https://img.shields.io/badge/Pip-ToolUniverse-blue)](https://pypi.org/project/tooluniverse/)
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  [![TxAgent](https://img.shields.io/badge/Code-TxAgent-purple)](https://github.com/mims-harvard/TxAgent)
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  [![ToolUniverse](https://img.shields.io/badge/Code-ToolUniverse-purple)](https://github.com/mims-harvard/ToolUniverse)
@@ -75,8 +75,7 @@ Requires-Dist: graphql-core
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  <span class="author-block">
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  <a href="https://zitniklab.hms.harvard.edu/" target="_blank"
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  >Marinka Zitnik</a
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- ><sup>,</span
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- >
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+ >
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  </div>
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@@ -122,3 +121,20 @@ tooluni.load_tools()
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  query = {"name": "get_indications_by_drug_name", "arguments": {"drug_name": "KISUNLA"}}
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  tooluni.run(query)
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  ```
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+ ## Citation
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+
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+ ```
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+ @misc{gao2025txagent,
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+ title={TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools},
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+ author={Shanghua Gao and Richard Zhu and Zhenglun Kong and Ayush Noori and Xiaorui Su and Curtis Ginder and Theodoros Tsiligkaridis and Marinka Zitnik},
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+ year={2025},
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+ eprint={2503.10970},
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+ archivePrefix={arXiv},
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+ primaryClass={cs.AI},
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+ url={https://arxiv.org/abs/2503.10970},
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+ }
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+ ```
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+
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+ ## Contact
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+ If you have any questions or suggestions, please email [Shanghua Gao](mailto:shanghuagao@gmail.com) and [Marinka Zitnik](mailto:marinka@hms.harvard.edu).
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+
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/README.md RENAMED
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  # ToolUniverse
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  [![ProjectPage](https://img.shields.io/badge/Page-TxAgent-red)](https://zitniklab.hms.harvard.edu/TxAgent)
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- [![PaperLink](https://img.shields.io/badge/PDF-TxAgent-red)]()
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- [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)]()
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+ [![PaperLink](https://img.shields.io/badge/Arxiv-TxAgent-red)](https://arxiv.org/pdf/2503.10970)
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+ [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)](https://pypi.org/project/txagent/)
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  [![ToolUniverse-PIP](https://img.shields.io/badge/Pip-ToolUniverse-blue)](https://pypi.org/project/tooluniverse/)
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  [![TxAgent](https://img.shields.io/badge/Code-TxAgent-purple)](https://github.com/mims-harvard/TxAgent)
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  [![ToolUniverse](https://img.shields.io/badge/Code-ToolUniverse-purple)](https://github.com/mims-harvard/ToolUniverse)
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  <span class="author-block">
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  <a href="https://zitniklab.hms.harvard.edu/" target="_blank"
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  >Marinka Zitnik</a
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- ><sup>,</span
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- >
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+ >
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  </div>
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@@ -108,3 +107,20 @@ tooluni.load_tools()
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  query = {"name": "get_indications_by_drug_name", "arguments": {"drug_name": "KISUNLA"}}
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  tooluni.run(query)
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  ```
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+ ## Citation
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+
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+ ```
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+ @misc{gao2025txagent,
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+ title={TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools},
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+ author={Shanghua Gao and Richard Zhu and Zhenglun Kong and Ayush Noori and Xiaorui Su and Curtis Ginder and Theodoros Tsiligkaridis and Marinka Zitnik},
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+ year={2025},
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+ eprint={2503.10970},
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+ archivePrefix={arXiv},
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+ primaryClass={cs.AI},
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+ url={https://arxiv.org/abs/2503.10970},
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+ }
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+ ```
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+
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+ ## Contact
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+ If you have any questions or suggestions, please email [Shanghua Gao](mailto:shanghuagao@gmail.com) and [Marinka Zitnik](mailto:marinka@hms.harvard.edu).
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+
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/setup.cfg RENAMED
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  [metadata]
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  name = tooluniverse
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- version = 0.1.1
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+ version = 0.1.3
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  description = A collection of biomedical tools designed for use by Agentic AI.
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  author = Shanghua Gao
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  author_email = shanghuagao@gmail.com
@@ -16,7 +16,6 @@ python_requires = >=3.6
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  install_requires =
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  requests
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  numpy
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- graphql
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  graphql-core
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  [options.packages.find]
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse/openfda_tool.py RENAMED
@@ -390,7 +390,7 @@ class FDADrugLabelGetDrugGenericNameTool(FDADrugLabelTool):
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  }
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- from data.fda_drugs_with_brand_generic_names_for_tool import drug_list
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+ from .data.fda_drugs_with_brand_generic_names_for_tool import drug_list
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  self.brand_to_generic = {drug['brand_name']: drug['generic_name'] for drug in drug_list}
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  self.generic_to_brand = {drug['generic_name']: drug['brand_name'] for drug in drug_list}
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/PKG-INFO RENAMED
@@ -1,22 +1,22 @@
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  Metadata-Version: 2.2
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  Name: tooluniverse
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- Version: 0.1.1
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+ Version: 0.1.3
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  Summary: A collection of biomedical tools designed for use by Agentic AI.
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  Home-page: https://github.com/mims-harvard/TxAgent
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  Author: Shanghua Gao
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  Author-email: shanghuagao@gmail.com
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  Requires-Python: >=3.6
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  Description-Content-Type: text/markdown
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+ License-File: LICENSE
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  Requires-Dist: requests
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  Requires-Dist: numpy
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- Requires-Dist: graphql
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  Requires-Dist: graphql-core
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  # ToolUniverse
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  [![ProjectPage](https://img.shields.io/badge/Page-TxAgent-red)](https://zitniklab.hms.harvard.edu/TxAgent)
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- [![PaperLink](https://img.shields.io/badge/PDF-TxAgent-red)]()
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- [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)]()
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+ [![PaperLink](https://img.shields.io/badge/Arxiv-TxAgent-red)](https://arxiv.org/pdf/2503.10970)
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+ [![TxAgent-PIP](https://img.shields.io/badge/Pip-TxAgent-blue)](https://pypi.org/project/txagent/)
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  [![ToolUniverse-PIP](https://img.shields.io/badge/Pip-ToolUniverse-blue)](https://pypi.org/project/tooluniverse/)
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  [![TxAgent](https://img.shields.io/badge/Code-TxAgent-purple)](https://github.com/mims-harvard/TxAgent)
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  [![ToolUniverse](https://img.shields.io/badge/Code-ToolUniverse-purple)](https://github.com/mims-harvard/ToolUniverse)
@@ -75,8 +75,7 @@ Requires-Dist: graphql-core
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  <span class="author-block">
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  <a href="https://zitniklab.hms.harvard.edu/" target="_blank"
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  >Marinka Zitnik</a
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- ><sup>,</span
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- >
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+ >
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  </div>
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@@ -122,3 +121,20 @@ tooluni.load_tools()
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  query = {"name": "get_indications_by_drug_name", "arguments": {"drug_name": "KISUNLA"}}
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  tooluni.run(query)
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  ```
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+ ## Citation
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+
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+ ```
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+ @misc{gao2025txagent,
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+ title={TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools},
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+ author={Shanghua Gao and Richard Zhu and Zhenglun Kong and Ayush Noori and Xiaorui Su and Curtis Ginder and Theodoros Tsiligkaridis and Marinka Zitnik},
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+ year={2025},
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+ eprint={2503.10970},
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+ archivePrefix={arXiv},
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+ primaryClass={cs.AI},
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+ url={https://arxiv.org/abs/2503.10970},
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+ }
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+ ```
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+
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+ ## Contact
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+ If you have any questions or suggestions, please email [Shanghua Gao](mailto:shanghuagao@gmail.com) and [Marinka Zitnik](mailto:marinka@hms.harvard.edu).
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+
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/SOURCES.txt RENAMED
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+ LICENSE
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  README.md
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  pyproject.toml
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  setup.cfg
{tooluniverse-0.1.1 → tooluniverse-0.1.3}/src/tooluniverse.egg-info/requires.txt RENAMED
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  requests
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  numpy
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- graphql
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  graphql-core