io.github.mims-harvard/tooluniverse

2,500+ scientific tools for AI scientists: life science, research, literature, and more.

io.github.mims-harvard/tooluniverse · Repository · Website · version 1.4.1 · 1.6k stars · listed from registry

Install

The sweep installs into a clean prefix, but this is the command a user would run:

uvx tooluniverse

Results by platform

Linux

needs configuration2026-08-16 · probed over pypi

1 recorded run, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading hf-xet (4.3MiB)
Downloading networkx (2.0MiB)
Downloading magika (14.7MiB)
Downloading playwright (45.5MiB)
Downloading epam-indigo (8.9MiB)
Downloading lxml (5.0MiB)
Downloading pypdfium2 (3.6MiB)
Downloading pip (1.7MiB)
Downloading pillow (6.6MiB)
Downloading scipy (33.6MiB)
Downloading openai (1.6MiB)
Downloading pdfminer-six (6.3MiB)
Downloading brotli (1.4MiB)
Downloading pandas (10.4MiB)
Downloading aiohttp (1.7MiB)
Downloading google-genai (1.0MiB)
Downloading sympy (6.0MiB)
Downloading onnxruntime (18.3MiB)
Downloading youtube-transcript-api (2.1MiB)
Downloading rustworkx (2.3MiB)
Downloading primp (5.1MiB)
Downloading numpy (15.9MiB)
Downloading tooluniverse (7.6MiB)
Downloading speechrecognition (31.3MiB)
Downloading faiss-cpu (30.0MiB)
 Downloaded brotli
 Downloaded aiohttp
 Downloaded youtube-transcript-api
 Downloaded rustworkx
 Downloaded pip
 Downloaded google-genai
 Downloaded pypdfium2
 Downloaded networkx
 Downloaded hf-xet
 Downloaded primp
 Downloaded lxml
 Downloaded pdfminer-six
 Downloaded pillow
 Downloaded openai
 Downloaded sympy
 Downloaded epam-indigo
 Downloaded magika
 Downloaded numpy
 Downloaded onnxruntime
 Downloaded pandas
 Downloaded speechrecognition
 Downloaded faiss-cpu
 Downloaded scipy
 Downloaded playwright
 Downloaded tooluniverse
Installed 171 packages in 1.41s
usage: tooluniverse [-h] [--load CONFIG] [--workspace DIR] [--global]
                    [--categories [CATEGORY ...] | --list-categories]
                    [--exclude-tools [TOOL_NAME ...]]
                    [--exclude-categories [CATEGORY ...]]
                    [--include-tools [TOOL_NAME ...]] [--tools-file FILE_PATH]
                    [--tool-config-files [CATEGORY:PATH ...]]
                    [--include-tool-types [TOOL_TYPE ...]]
                    [--exclude-tool-types [TOOL_TYPE ...]] [--list-tools]
                    [--name NAME] [--no-search] [--max-workers MAX_WORKERS]
                    [--verbose] [--compact-mode] [--hooks]
                    [--hook-type {SummarizationHook,FileSaveHook}]
                    [--hook-config-file HOOK_CONFIG_FILE]
tooluniverse: error: unrecognized arguments: tooluniverse-smcp-stdio

macOS

needs configuration2026-08-16 · probed over pypi

1 recorded run, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading pip (1.7MiB)
Downloading google-genai (1.0MiB)
Downloading youtube-transcript-api (2.1MiB)
Downloading pdfminer-six (6.3MiB)
Downloading pypdfium2 (3.3MiB)
Downloading openai (1.6MiB)
Downloading networkx (2.0MiB)
Downloading numpy (5.1MiB)
Downloading sympy (6.0MiB)
Downloading primp (4.5MiB)
Downloading speechrecognition (31.3MiB)
Downloading hf-xet (3.7MiB)
Downloading magika (12.7MiB)
Downloading pandas (9.5MiB)
Downloading tooluniverse (7.6MiB)
Downloading scipy (19.5MiB)
Downloading epam-indigo (5.6MiB)
Downloading rustworkx (2.0MiB)
Downloading lxml (8.2MiB)
Downloading playwright (40.5MiB)
Downloading faiss-cpu (3.2MiB)
Downloading onnxruntime (18.3MiB)
 Downloaded youtube-transcript-api
 Downloaded rustworkx
 Downloaded pip
 Downloaded faiss-cpu
 Downloaded pypdfium2
 Downloaded google-genai
 Downloaded networkx
 Downloaded hf-xet
 Downloaded primp
 Downloaded numpy
 Downloaded epam-indigo
 Downloaded pdfminer-six
 Downloaded openai
 Downloaded sympy
 Downloaded pandas
 Downloaded lxml
 Downloaded magika
 Downloaded speechrecognition
 Downloaded onnxruntime
 Downloaded playwright
 Downloaded scipy
 Downloaded tooluniverse
Installed 169 packages in 2.70s
usage: tooluniverse [-h] [--load CONFIG] [--workspace DIR] [--global]
                    [--categories [CATEGORY ...] | --list-categories]
                    [--exclude-tools [TOOL_NAME ...]]
                    [--exclude-categories [CATEGORY ...]]
                    [--include-tools [TOOL_NAME ...]] [--tools-file FILE_PATH]
                    [--tool-config-files [CATEGORY:PATH ...]]
                    [--include-tool-types [TOOL_TYPE ...]]
                    [--exclude-tool-types [TOOL_TYPE ...]] [--list-tools]
                    [--name NAME] [--no-search] [--max-workers MAX_WORKERS]
                    [--verbose] [--compact-mode] [--hooks]
                    [--hook-type {SummarizationHook,FileSaveHook}]
                    [--hook-config-file HOOK_CONFIG_FILE]
tooluniverse: error: unrecognized arguments: tooluniverse-smcp-stdio

Windows

needs configuration2026-08-16 · probed over pypi

1 recorded run, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading pandas (9.4MiB)
Downloading networkx (2.0MiB)
Downloading pip (1.7MiB)
Downloading openai (1.6MiB)
Downloading google-genai (1.0MiB)
Downloading hf-xet (3.8MiB)
Downloading youtube-transcript-api (2.1MiB)
Downloading speechrecognition (31.3MiB)
Downloading pdfminer-six (6.3MiB)
Downloading sympy (6.0MiB)
Downloading primp (4.4MiB)
Downloading magika (12.1MiB)
Downloading faiss-cpu (17.3MiB)
Downloading epam-indigo (8.9MiB)
Downloading rustworkx (2.2MiB)
Downloading tooluniverse (7.6MiB)
Downloading lxml (3.8MiB)
Downloading onnxruntime (10.8MiB)
Downloading numpy (11.9MiB)
Downloading pypdfium2 (3.7MiB)
Downloading scipy (34.9MiB)
Downloading playwright (36.4MiB)
 Downloaded youtube-transcript-api
 Downloaded rustworkx
 Downloaded pip
 Downloaded google-genai
 Downloaded pypdfium2
 Downloaded lxml
 Downloaded networkx
 Downloaded hf-xet
 Downloaded primp
 Downloaded pdfminer-six
 Downloaded epam-indigo
 Downloaded openai
 Downloaded tooluniverse
 Downloaded magika
 Downloaded numpy
 Downloaded faiss-cpu
 Downloaded sympy
 Downloaded speechrecognition
 Downloaded pandas
 Downloaded onnxruntime
 Downloaded playwright
 Downloaded scipy
Installed 173 packages in 1m 09s
usage: tooluniverse [-h] [--load CONFIG] [--workspace DIR] [--global]
                    [--categories [CATEGORY ...] | --list-categories]
                    [--exclude-tools [TOOL_NAME ...]]
                    [--exclude-categories [CATEGORY ...]]
                    [--include-tools [TOOL_NAME ...]] [--tools-file FILE_PATH]
                    [--tool-config-files [CATEGORY:PATH ...]]
                    [--include-tool-types [TOOL_TYPE ...]]
                    [--exclude-tool-types [TOOL_TYPE ...]] [--list-tools]
                    [--name NAME] [--no-search] [--max-workers MAX_WORKERS]
                    [--verbose] [--compact-mode] [--hooks]
                    [--hook-type {SummarizationHook,FileSaveHook}]
                    [--hook-config-file HOOK_CONFIG_FILE]
tooluniverse: error: unrecognized arguments: tooluniverse-smcp-stdio

Badge

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