97 Commits

Author	SHA1	Message	Date
Timothy Kassis	ea638c5618	Add support for Adaptyv for protein design	2025-11-24 19:52:45 -05:00
Timothy Kassis	65b39d45d6	Add support for OpenAlex	2025-11-19 13:38:32 -08:00
Timothy Kassis	c078c98ad2	Add Perplexity search	2025-11-16 16:16:21 -08:00
Timothy Kassis	2e80732340	Add uv installation instructions	2025-11-16 15:36:33 -08:00
Timothy Kassis	d94f21c51f	Add support for fluidsim for computational fluid dynamics	2025-11-13 19:46:29 -08:00
Timothy Kassis	54cab8e4b5	Update readme to clarify refactoring	2025-11-13 19:20:09 -08:00
Timothy Kassis	ad2dfc3446	Update readme	2025-11-13 19:17:42 -08:00
Timothy Kassis	cc99fdb57d	Add support for Modal so researchers can scale compute on demand for heavy computational tasks beyond running locally	2025-11-10 10:57:05 -08:00
Timothy Kassis	50fdaf1b04	Add Slack link	2025-11-10 09:24:36 -08:00
Timothy Kassis	0e4939147f	Link to examples	2025-11-06 17:05:17 -08:00
Timothy Kassis	1225ddecf1	Add support for both geniml and gtars	2025-11-04 10:22:03 -08:00
Timothy Kassis	63a4293f1a	Add support for the Denario AI scientist	2025-11-03 17:04:20 -08:00
Timothy Kassis	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.	2025-11-02 14:54:16 -08:00
Timothy Kassis	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.	2025-11-02 14:52:06 -08:00
Timothy Kassis	27d6ee387f	Add support for Vaex for fast, memory-efficient exploration and visualization of large tabular datasets using lazy, out-of-core computation.	2025-11-02 14:43:20 -08:00
Timothy Kassis	f32b3f8b42	Add support for SymPY for symbolic mathematics that enables algebraic manipulation, equation solving, calculus, and symbolic computation directly in Python.	2025-11-02 14:30:20 -08:00
Timothy Kassis	ed2d1c4aeb	Add support for NetworkX for creating, analyzing, and visualizing complex networks and graphs.	2025-11-02 14:19:20 -08:00
Timothy Kassis	7e3fae3ad1	Add support to LaminDB	2025-10-31 11:39:54 -07:00
Timothy Kassis	97c03a11e5	Add Claude Code installation instructions	2025-10-31 11:21:01 -07:00
Timothy Kassis	b6bb261a71	Consolidate getting started	2025-10-31 09:49:48 -07:00
Haoxuan "Orion" Li	aa5018612f	Update README to include quick installation instructions for Cursor users and clarify MCP server usage across various clients.	2025-10-30 15:01:20 -07:00
Timothy Kassis	f12f9c2904	Enhance README by adding a call to action for users to star the repository, promoting visibility and ongoing maintenance.	2025-10-28 17:57:09 -07:00
Timothy Kassis	55af02f2d4	Add star history	2025-10-28 17:52:44 -07:00
Timothy Kassis	346010a1bf	Add Markitdown skill to read all sorts of documents	2025-10-28 16:31:01 -07:00
Timothy Kassis	5b37b62147	Update README to reflect the increase in equivalent tools from 500 to 1002	2025-10-28 15:54:00 -07:00
Timothy Kassis	82901e9fbe	Add hypothesis generation using HypoGeniC and HypoRefine	2025-10-28 12:53:43 -07:00
Timothy Kassis	981823a71a	Add ScholarEval as a thinking framework	2025-10-28 10:45:34 -07:00
Timothy Kassis	1f03feda5c	Add protocols.io integration	2025-10-26 11:09:03 -07:00
Timothy Kassis	44285238c4	Fix context initialization by using AGENTS.md instead of AGENT.md	2025-10-26 10:18:45 -07:00
Timothy Kassis	04d528c4bc	Added support for NeuroKit2	2025-10-25 21:38:31 -07:00
Timothy Kassis	a5c2ed9bb6	Add literature review skill	2025-10-25 10:55:36 -07:00
Timothy Kassis	295370a730	Update README.md to replace downloads and workflows badges with an equivalent tools badge for improved clarity.	2025-10-25 10:38:43 -07:00
Timothy Kassis	4fde8cb6de	Enhance README.md by adding a downloads badge to track total downloads of the project.	2025-10-24 19:41:22 -07:00
Timothy Kassis	564bd39835	Add support for HistoLab	2025-10-24 13:41:06 -07:00
Timothy Kassis	1871693348	Enhance README.md with detailed instructions for various workflows, emphasizing the importance of organized output and the creation of comprehensive documentation and visualizations.	2025-10-24 09:30:56 -07:00
Timothy Kassis	0e03bbcf38	Update readme	2025-10-24 09:23:19 -07:00
Timothy Kassis	ca6fd369d7	Add DrugBank access	2025-10-24 09:04:43 -07:00
Timothy Kassis	d923063309	Change license to MIT allowing commercial use!	2025-10-23 20:48:01 -07:00
Timothy Kassis	ee73143b53	Add scikit-survival for survival analysis allowing users to establish connections between covariates and time of an event	2025-10-23 10:02:16 -07:00
Timothy Kassis	b1df506eba	Add support for PyHealth making healthcare AI simpler and more powerful	2025-10-23 09:50:07 -07:00
Timothy Kassis	bb1c9f4573	Add support for PyDicom	2025-10-23 09:35:46 -07:00
Timothy Kassis	6cb25aea28	Add SimPy a process-based discrete-event simulation framework	2025-10-23 09:26:44 -07:00
Timothy Kassis	3fbd9ba6a9	Add utility skill to get system resources	2025-10-23 09:12:01 -07:00
Timothy Kassis	87a608730c	Add support for bioRxiv database search and paper downloading	2025-10-23 08:51:45 -07:00
Timothy Kassis	0943c243bb	Added full support for ToolUniverse. Claude Code can now use the tools it provide as it needs without the MCP being a gateway.	2025-10-22 14:59:27 -07:00
Timothy Kassis	0b5a648e98	Add Paper2Web	2025-10-22 08:50:06 -07:00
Timothy Kassis	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.	2025-10-22 08:24:40 -07:00
Timothy Kassis	08608e824a	Use Agent.md	2025-10-21 17:35:37 -07:00
Timothy Kassis	1a9149b089	Improve Pytorch Lightning skill	2025-10-21 10:19:15 -07:00
Timothy Kassis	aacc29a778	Add TorchDrug	2025-10-21 10:03:00 -07:00