skills/claude-scientific-skills
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  • c85faf039a Update marketplace.json to version 2.10.0 and reorganize scientific skills, adding new skills for citation management, clinical decision support, and research documentation while restoring previously removed skills. Vinayak Agarwal 2025-12-11 20:00:59 -08:00
  • ae60fcf620 Added all updated deep research and writing skills Vinayak Agarwal 2025-12-11 18:37:06 -08:00
  • 78331e1b37 Remove all writing skills for upcoming upgrade v2.9.0 Timothy Kassis 2025-12-07 13:54:58 -08:00
  • ab4aff4670 Update README.md to include a promotional note for k-dense.ai, enhancing visibility of advanced capabilities. Timothy Kassis 2025-12-07 13:41:35 -08:00
  • 6560f1d779 Change Flux.2-dev to flex since dev does not exist v2.8.1 Timothy Kassis 2025-12-04 14:50:30 -08:00
  • 49567890a6 Add BRENDA enzyme database v2.8.0 Timothy Kassis 2025-12-03 17:29:05 -08:00
  • ec10daba7e Merge pull request #12 from jxtse/add-brenda-database-skill Timothy Kassis 2025-12-02 20:47:18 -08:00
  • 280a53f95e Add BRENDA database skill for enzyme research and analysis Jinxiang Xie 2025-12-03 12:36:49 +08:00
  • 9347d99355 Improve generate-image description Timothy Kassis 2025-11-30 09:36:44 -05:00
  • 90de96a99b Add support for generating scientific illustrations using Nano Banan Pro and Flux.2 Pro v2.7.0 Timothy Kassis 2025-11-30 09:30:58 -05:00
  • 8d82c83a1a Merge pull request #11 from aledlie/main Timothy Kassis 2025-11-30 08:52:18 -05:00
  • 7e8deebf96 Add support for Qiskit from IBM: software stack for quantum computing and algorithms research. Build, optimize, and execute quantum workloads at scale. v2.6.0 Timothy Kassis 2025-11-30 08:46:41 -05:00
  • 7763491813 Add support for PennyLane: a cross-platform library for quantum computing, quantum machine learning, and quantum chemistry. Timothy Kassis 2025-11-30 08:27:24 -05:00
  • 16e47a1755 Add support for Cirq: library for writing, manipulating, and optimizing quantum circuits, and then running them on quantum computers and quantum simulators. Timothy Kassis 2025-11-30 08:02:58 -05:00
  • a077cee836 Add support for QuTiP: an open-source software for simulating the dynamics of open quantum systems. Timothy Kassis 2025-11-30 07:46:17 -05:00
  • 7caef7df68 Fix Reactome database nesting v2.5.1 Timothy Kassis 2025-11-30 06:28:41 -05:00
  • bf4267161f refactor: replace manual argv parsing with argparse Alyshia Ledlie 2025-11-29 01:11:21 -05:00
  • 6ac2a15e39 Add support for GeoPandas v2.5.0 Timothy Kassis 2025-11-27 18:57:26 -05:00
  • 41f272c2bd Add Plotly support Timothy Kassis 2025-11-27 18:47:08 -05:00
  • 02574ba19d Merge pull request #10 from K-Dense-AI/add_adaptyv_integration v2.4.0 Timothy Kassis 2025-11-24 19:53:28 -05:00
  • ea638c5618 Add support for Adaptyv for protein design Timothy Kassis 2025-11-24 19:52:45 -05:00
  • 8e7a791871 Merge pull request #8 from alperyilmaz/patch-1 Timothy Kassis 2025-11-23 04:54:15 -08:00
  • 3bb0ee77be updated CHEMBL function calls Alper Yilmaz 2025-11-21 12:52:30 +03:00
  • e5fc882746 Merge pull request #6 from K-Dense-AI:open_alex_integration v2.3.0 Timothy Kassis 2025-11-19 13:39:08 -08:00
  • 65b39d45d6 Add support for OpenAlex Timothy Kassis 2025-11-19 13:38:32 -08:00
  • c078c98ad2 Add Perplexity search v2.2.0 Timothy Kassis 2025-11-16 16:16:21 -08:00
  • 2e80732340 Add uv installation instructions v2.1.1 Timothy Kassis 2025-11-16 15:36:33 -08:00
  • 2fc3e6a88e Updated installation instructions for all skills to always use uv pip install Timothy Kassis 2025-11-16 15:34:52 -08:00
  • d94f21c51f Add support for fluidsim for computational fluid dynamics v2.1.0 Timothy Kassis 2025-11-13 19:46:29 -08:00
  • 19c0b390ee Merge pull request #5 from K-Dense-AI/refactor_skills v2.0.0 Timothy Kassis 2025-11-13 19:21:02 -08:00
  • 54cab8e4b5 Update readme to clarify refactoring Timothy Kassis 2025-11-13 19:20:09 -08:00
  • ad2dfc3446 Update readme Timothy Kassis 2025-11-13 19:17:42 -08:00
  • 63f257d81e Consolidate plugins Timothy Kassis 2025-11-13 18:57:02 -08:00
  • 8be6c6c307 Consolidate skills Timothy Kassis 2025-11-13 18:50:42 -08:00
  • cc99fdb57d Add support for Modal so researchers can scale compute on demand for heavy computational tasks beyond running locally v1.80.0 Timothy Kassis 2025-11-10 10:57:05 -08:00
  • 50fdaf1b04 Add Slack link Timothy Kassis 2025-11-10 09:24:36 -08:00
  • 82663ee1de Bump version v1.70.1 Timothy Kassis 2025-11-07 09:37:59 -08:00
  • 2873d0e39d Improve the EDA skill Timothy Kassis 2025-11-07 09:37:14 -08:00
  • 0e4939147f Link to examples Timothy Kassis 2025-11-06 17:05:17 -08:00
  • 5b7081cbff Add examples Timothy Kassis 2025-11-06 17:04:04 -08:00
  • ffad3d81b0 Improve the EDA skill Timothy Kassis 2025-11-04 17:25:06 -08:00
  • 1225ddecf1 Add support for both geniml and gtars v1.70.0 Timothy Kassis 2025-11-04 10:22:03 -08:00
  • 4ad4f9970f Improve the scikit-learn skill Timothy Kassis 2025-11-04 10:11:46 -08:00
  • 63a4293f1a Add support for the Denario AI scientist v1.69.0 Timothy Kassis 2025-11-03 17:04:20 -08:00
  • f124e28509 Update the PyOpenMS skill Timothy Kassis 2025-11-03 16:55:01 -08:00
  • c56fa43747 Improve the Hugging Face transformers skill Timothy Kassis 2025-11-03 16:44:15 -08:00
  • 86d8878eeb Improve the astropy skill Timothy Kassis 2025-11-03 16:34:14 -08:00
  • d57129ca3f Bump version v1.68.1 Timothy Kassis 2025-11-03 16:21:47 -08:00
  • 537edff2a1 Improve the arboreto skill Timothy Kassis 2025-11-03 16:21:26 -08:00
  • 6ddea4786e Improve the anndata skill Timothy Kassis 2025-11-03 16:09:01 -08:00
  • 094d5aa9f1 Improve the aeon skill Timothy Kassis 2025-11-03 15:59:29 -08:00
  • 862445f531 Add support for Stable-Baselines3, a PyTorch-based library providing reliable, well-tested implementations of popular deep reinforcement learning algorithms with a simple and consistent API for research and training. v1.68.0 Timothy Kassis 2025-11-02 14:54:16 -08:00
  • b8c4d2bae1 Add support for PufferLib which is a high-performance, open-source Python toolkit that wraps complex RL environments to look like standard Gym/PettingZoo interfaces and supports massively parallel simulation (1M+ steps/sec) to accelerate deep reinforcement learning. Timothy Kassis 2025-11-02 14:52:06 -08:00
  • 27d6ee387f Add support for Vaex for fast, memory-efficient exploration and visualization of large tabular datasets using lazy, out-of-core computation. Timothy Kassis 2025-11-02 14:43:20 -08:00
  • f32b3f8b42 Add support for SymPY for symbolic mathematics that enables algebraic manipulation, equation solving, calculus, and symbolic computation directly in Python. Timothy Kassis 2025-11-02 14:30:20 -08:00
  • ed2d1c4aeb Add support for NetworkX for creating, analyzing, and visualizing complex networks and graphs. Timothy Kassis 2025-11-02 14:19:20 -08:00
  • 7e3fae3ad1 Add support to LaminDB v1.67.0 Timothy Kassis 2025-10-31 11:39:54 -07:00
  • 97c03a11e5 Add Claude Code installation instructions Timothy Kassis 2025-10-31 11:21:01 -07:00
  • b6bb261a71 Consolidate getting started Timothy Kassis 2025-10-31 09:49:48 -07:00
  • c0de4269c0 Merge pull request #3 from K-Dense-AI/orion/add-hosted-mcp Timothy Kassis 2025-10-30 16:12:15 -07:00
  • aa5018612f Update README to include quick installation instructions for Cursor users and clarify MCP server usage across various clients. Haoxuan "Orion" Li 2025-10-30 15:01:20 -07:00
  • f12f9c2904 Enhance README by adding a call to action for users to star the repository, promoting visibility and ongoing maintenance. Timothy Kassis 2025-10-28 17:57:09 -07:00
  • 55af02f2d4 Add star history Timothy Kassis 2025-10-28 17:52:44 -07:00
  • 346010a1bf Add Markitdown skill to read all sorts of documents v1.66.0 Timothy Kassis 2025-10-28 16:31:01 -07:00
  • 5b37b62147 Update README to reflect the increase in equivalent tools from 500 to 1002 Timothy Kassis 2025-10-28 15:54:00 -07:00
  • 82901e9fbe Add hypothesis generation using HypoGeniC and HypoRefine v1.65.0 Timothy Kassis 2025-10-28 12:53:43 -07:00
  • 752c32949b Add citation Timothy Kassis 2025-10-28 10:47:44 -07:00
  • 981823a71a Add ScholarEval as a thinking framework v1.64.0 Timothy Kassis 2025-10-28 10:45:34 -07:00
  • 26d4fde324 Updated skill descrtipotions to resolve possible conflicts in their use Vinayak Agarwal 2025-10-26 18:52:50 -07:00
  • 1f03feda5c Add protocols.io integration v1.63.0 Timothy Kassis 2025-10-26 11:09:03 -07:00
  • 44285238c4 Fix context initialization by using AGENTS.md instead of AGENT.md v1.62.0 Timothy Kassis 2025-10-26 10:18:45 -07:00
  • af246ac562 Revise literature review template to enhance structure and clarity, including expanded sections for authors' affiliations, review types, and detailed methodology. Update abstract format to include background, objectives, methods, results, and conclusions. Introduce new subsections for protocol registration, quality assessment, and knowledge gaps, ensuring comprehensive guidance for systematic reviews. Vinayak Agarwal 2025-10-25 23:30:34 -07:00
  • 04d528c4bc Added support for NeuroKit2 v1.61.0 Timothy Kassis 2025-10-25 21:38:31 -07:00
  • b83942845c Support for aeon for time-series analysis and machine learning Timothy Kassis 2025-10-25 21:25:50 -07:00
  • 6cefe6f4cc Add support for PyLabRobot for lab automation Timothy Kassis 2025-10-25 21:23:47 -07:00
  • a5c2ed9bb6 Add literature review skill v1.60.0 Timothy Kassis 2025-10-25 10:55:36 -07:00
  • 295370a730 Update README.md to replace downloads and workflows badges with an equivalent tools badge for improved clarity. Timothy Kassis 2025-10-25 10:38:43 -07:00
  • 4fde8cb6de Enhance README.md by adding a downloads badge to track total downloads of the project. Timothy Kassis 2025-10-24 19:41:22 -07:00
  • 564bd39835 Add support for HistoLab v1.59.0 Timothy Kassis 2025-10-24 13:41:06 -07:00
  • 7240da6e6c Add support for PathML Timothy Kassis 2025-10-24 13:40:40 -07:00
  • 1871693348 Enhance README.md with detailed instructions for various workflows, emphasizing the importance of organized output and the creation of comprehensive documentation and visualizations. Timothy Kassis 2025-10-24 09:30:56 -07:00
  • 0e03bbcf38 Update readme Timothy Kassis 2025-10-24 09:23:19 -07:00
  • ca6fd369d7 Add DrugBank access v1.57.0 Timothy Kassis 2025-10-24 09:04:43 -07:00
  • 808fa11206 Add DataCommons which enables scientists to programmatically access nodes in the Data Commons knowledge graph. Timothy Kassis 2025-10-24 09:04:27 -07:00
  • d923063309 Change license to MIT allowing commercial use! v1.56.0 Timothy Kassis 2025-10-23 20:48:01 -07:00
  • 43dc67a316 Version bump v1.55.0 Timothy Kassis 2025-10-23 10:02:31 -07:00
  • ee73143b53 Add scikit-survival for survival analysis allowing users to establish connections between covariates and time of an event Timothy Kassis 2025-10-23 10:02:16 -07:00
  • b1df506eba Add support for PyHealth making healthcare AI simpler and more powerful Timothy Kassis 2025-10-23 09:50:07 -07:00
  • bb1c9f4573 Add support for PyDicom Timothy Kassis 2025-10-23 09:35:46 -07:00
  • 6cb25aea28 Add SimPy a process-based discrete-event simulation framework Timothy Kassis 2025-10-23 09:26:44 -07:00
  • 92b4e024d1 Addition of ESM, SHAP, scvi-tools...and much more! v1.54.0 Timothy Kassis 2025-10-23 09:12:41 -07:00
  • 3fbd9ba6a9 Add utility skill to get system resources Timothy Kassis 2025-10-23 09:12:01 -07:00
  • 62ddd1296c Add ESM3 and ESM C models protein models Timothy Kassis 2025-10-23 09:10:34 -07:00
  • a11ca9c100 Add sciv-tools providing models for single cell sequencing Timothy Kassis 2025-10-23 09:09:18 -07:00
  • db2cedb2fb Add SHAP for model explainability Timothy Kassis 2025-10-23 09:08:27 -07:00
  • 87a608730c Add support for bioRxiv database search and paper downloading Timothy Kassis 2025-10-23 08:51:45 -07:00
  • 0943c243bb Added full support for ToolUniverse. Claude Code can now use the tools it provide as it needs without the MCP being a gateway. v1.53.0 Timothy Kassis 2025-10-22 14:59:27 -07:00
  • 0b5a648e98 Add Paper2Web v1.52.0 Timothy Kassis 2025-10-22 08:50:06 -07:00
  • 77822efeed Improved Biomni support v1.51.0 Timothy Kassis 2025-10-22 08:38:06 -07:00
  • 71a3c3750f Enhance README with detailed examples for complex scientific workflows across drug discovery, bioinformatics, and clinical genomics, showcasing multi-step processes and integration of various tools. Timothy Kassis 2025-10-22 08:24:40 -07:00