René's URL Explorer Experiment

Title: GitHub - OpenProteinAI/RFdiffusion: Code for running RFdiffusion · GitHub

Open Graph Title: GitHub - OpenProteinAI/RFdiffusion: Code for running RFdiffusion

X Title: GitHub - OpenProteinAI/RFdiffusion: Code for running RFdiffusion

Description: Code for running RFdiffusion. Contribute to OpenProteinAI/RFdiffusion development by creating an account on GitHub.

Open Graph Description: Code for running RFdiffusion. Contribute to OpenProteinAI/RFdiffusion development by creating an account on GitHub.

X Description: Code for running RFdiffusion. Contribute to OpenProteinAI/RFdiffusion development by creating an account on GitHub.

Opengraph URL: https://github.com/OpenProteinAI/RFdiffusion

X: @github

direct link

Domain: github.com

route-pattern	/:user_id/:repository
route-controller	files
route-action	disambiguate
fetch-nonce	v2:c7db9c04-6fa5-b7d1-a502-0dca3b335113
current-catalog-service-hash	f3abb0cc802f3d7b95fc8762b94bdcb13bf39634c40c357301c4aa1d67a256fb
request-id	B904:19A823:1FF652:2D413D:6A4BC1D8
html-safe-nonce	832a9bcd634ab0e68e0847f4fcf68a69d0e4ebc19f4585af675cbe12aff3e6a9
visitor-payload	eyJyZWZlcnJlciI6IiIsInJlcXVlc3RfaWQiOiJCOTA0OjE5QTgyMzoxRkY2NTI6MkQ0MTNEOjZBNEJDMUQ4IiwidmlzaXRvcl9pZCI6Ijg3NjMyMDI2NjY5NDk3NTUzNTIiLCJyZWdpb25fZWRnZSI6ImlhZCIsInJlZ2lvbl9yZW5kZXIiOiJpYWQifQ==
visitor-hmac	9bdd6f87674e7d371d2eba96651d70876298cfbc5c2c32ab5b47610f93d9f9a9
hovercard-subject-tag	repository:1029868089
github-keyboard-shortcuts	repository,copilot
google-site-verification	Apib7-x98H0j5cPqHWwSMm6dNU4GmODRoqxLiDzdx9I
octolytics-url	https://collector.github.com/github/collect
analytics-location	//
fb:app_id	1401488693436528
apple-itunes-app	app-id=1477376905, app-argument=https://github.com/OpenProteinAI/RFdiffusion
twitter:image	https://opengraph.githubassets.com/697c7cfa15cc4d7ed068aef03e98cf16fc5a6e264a21d9e5e5e0c82e4a477ee7/OpenProteinAI/RFdiffusion
twitter:card	summary_large_image
og:image	https://opengraph.githubassets.com/697c7cfa15cc4d7ed068aef03e98cf16fc5a6e264a21d9e5e5e0c82e4a477ee7/OpenProteinAI/RFdiffusion
og:image:alt	Code for running RFdiffusion. Contribute to OpenProteinAI/RFdiffusion development by creating an account on GitHub.
og:image:width	1200
og:image:height	600
og:site_name	GitHub
og:type	object
hostname	github.com
expected-hostname	github.com
None	14aa00ce5bdb34d0eefb5facbffd7de9e144c688d8a93ef8df902d5f94b51dd7
turbo-cache-control	no-cache
go-import	github.com/OpenProteinAI/RFdiffusion git https://github.com/OpenProteinAI/RFdiffusion.git
octolytics-dimension-user_id	91109356
octolytics-dimension-user_login	OpenProteinAI
octolytics-dimension-repository_id	1029868089
octolytics-dimension-repository_nwo	OpenProteinAI/RFdiffusion
octolytics-dimension-repository_public	true
octolytics-dimension-repository_is_fork	true
octolytics-dimension-repository_parent_id	620471484
octolytics-dimension-repository_parent_nwo	RosettaCommons/RFdiffusion
octolytics-dimension-repository_network_root_id	620471484
octolytics-dimension-repository_network_root_nwo	RosettaCommons/RFdiffusion
turbo-body-classes	logged-out env-production page-responsive
disable-turbo	false
browser-stats-url	https://api.github.com/_private/browser/stats
browser-errors-url	https://api.github.com/_private/browser/errors
release	58b8f89190447502561829f30862aa0a99d53367
ui-target	full
theme-color	#1e2327
color-scheme	light dark

Links:

Skip to content	https://github.com/OpenProteinAI/RFdiffusion#start-of-content
	https://github.com/
Sign in	https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2FOpenProteinAI%2FRFdiffusion
GitHub CopilotWrite better code with AI	https://github.com/features/copilot
GitHub Copilot appDirect agents from issue to merge	https://github.com/features/ai/github-app
MCP RegistryNewIntegrate external tools	https://github.com/mcp
ActionsAutomate any workflow	https://github.com/features/actions
CodespacesInstant dev environments	https://github.com/features/codespaces
IssuesPlan and track work	https://github.com/features/issues
Code ReviewManage code changes	https://github.com/features/code-review
GitHub Advanced SecurityFind and fix vulnerabilities	https://github.com/security/advanced-security
Code securitySecure your code as you build	https://github.com/security/advanced-security/code-security
Secret protectionStop leaks before they start	https://github.com/security/advanced-security/secret-protection
Why GitHub	https://github.com/why-github
Documentation	https://docs.github.com
Blog	https://github.blog
Changelog	https://github.blog/changelog
Marketplace	https://github.com/marketplace
View all features	https://github.com/features
Enterprises	https://github.com/enterprise
Small and medium teams	https://github.com/team
Startups	https://github.com/enterprise/startups
Nonprofits	https://github.com/solutions/industry/nonprofits
App Modernization	https://github.com/solutions/use-case/app-modernization
DevSecOps	https://github.com/solutions/use-case/devsecops
DevOps	https://github.com/solutions/use-case/devops
CI/CD	https://github.com/solutions/use-case/ci-cd
View all use cases	https://github.com/solutions/use-case
Healthcare	https://github.com/solutions/industry/healthcare
Financial services	https://github.com/solutions/industry/financial-services
Manufacturing	https://github.com/solutions/industry/manufacturing
Government	https://github.com/solutions/industry/government
View all industries	https://github.com/solutions/industry
View all solutions	https://github.com/solutions
AI	https://github.com/resources/articles?topic=ai
Software Development	https://github.com/resources/articles?topic=software-development
DevOps	https://github.com/resources/articles?topic=devops
Security	https://github.com/resources/articles?topic=security
View all topics	https://github.com/resources/articles
Customer stories	https://github.com/customer-stories
Events & webinars	https://github.com/resources/events
Ebooks & reports	https://github.com/resources/whitepapers
Business insights	https://github.com/solutions/executive-insights
GitHub Skills	https://skills.github.com
Documentation	https://docs.github.com
Customer support	https://support.github.com
Community forum	https://github.com/orgs/community/discussions
Trust center	https://github.com/trust-center
Partners	https://github.com/partners
View all resources	https://github.com/resources
GitHub SponsorsFund open source developers	https://github.com/sponsors
Security Lab	https://securitylab.github.com
Maintainer Community	https://maintainers.github.com
Accelerator	https://github.com/accelerator
GitHub Stars	https://stars.github.com
Archive Program	https://archiveprogram.github.com
Topics	https://github.com/topics
Trending	https://github.com/trending
Collections	https://github.com/collections
Enterprise platformAI-powered developer platform	https://github.com/enterprise
GitHub Advanced SecurityEnterprise-grade security features	https://github.com/security/advanced-security
Copilot for BusinessEnterprise-grade AI features	https://github.com/features/copilot/copilot-business
Premium SupportEnterprise-grade 24/7 support	https://github.com/premium-support
Pricing	https://github.com/pricing
Search syntax tips	https://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
documentation	https://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
Sign in	https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2FOpenProteinAI%2FRFdiffusion
Sign up	https://github.com/signup?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo&source_repo=OpenProteinAI%2FRFdiffusion
Reload	https://github.com/OpenProteinAI/RFdiffusion
Reload	https://github.com/OpenProteinAI/RFdiffusion
Reload	https://github.com/OpenProteinAI/RFdiffusion
Please reload this page	https://github.com/OpenProteinAI/RFdiffusion
OpenProteinAI	https://github.com/OpenProteinAI
RFdiffusion	https://github.com/OpenProteinAI/RFdiffusion
RosettaCommons/RFdiffusion	https://github.com/RosettaCommons/RFdiffusion
Notifications	https://github.com/login?return_to=%2FOpenProteinAI%2FRFdiffusion
Fork 0	https://github.com/login?return_to=%2FOpenProteinAI%2FRFdiffusion
Star 0	https://github.com/login?return_to=%2FOpenProteinAI%2FRFdiffusion
Code	https://github.com/OpenProteinAI/RFdiffusion
Pull requests 0	https://github.com/OpenProteinAI/RFdiffusion/pulls
Actions	https://github.com/OpenProteinAI/RFdiffusion/actions
Projects	https://github.com/OpenProteinAI/RFdiffusion/projects
Security and quality 0	https://github.com/OpenProteinAI/RFdiffusion/security
Insights	https://github.com/OpenProteinAI/RFdiffusion/pulse
Code	https://github.com/OpenProteinAI/RFdiffusion
Pull requests	https://github.com/OpenProteinAI/RFdiffusion/pulls
Actions	https://github.com/OpenProteinAI/RFdiffusion/actions
Projects	https://github.com/OpenProteinAI/RFdiffusion/projects
Security and quality	https://github.com/OpenProteinAI/RFdiffusion/security
Insights	https://github.com/OpenProteinAI/RFdiffusion/pulse
	https://github.com/OpenProteinAI/RFdiffusion
Branches	https://github.com/OpenProteinAI/RFdiffusion/branches
Tags	https://github.com/OpenProteinAI/RFdiffusion/tags
	https://github.com/OpenProteinAI/RFdiffusion/branches
	https://github.com/OpenProteinAI/RFdiffusion/tags
65 Commits	https://github.com/OpenProteinAI/RFdiffusion/commits/main/
	https://github.com/OpenProteinAI/RFdiffusion/commits/main/
.rosetta-ci	https://github.com/OpenProteinAI/RFdiffusion/tree/main/.rosetta-ci
.rosetta-ci	https://github.com/OpenProteinAI/RFdiffusion/tree/main/.rosetta-ci
config/inference	https://github.com/OpenProteinAI/RFdiffusion/tree/main/config/inference
config/inference	https://github.com/OpenProteinAI/RFdiffusion/tree/main/config/inference
docker	https://github.com/OpenProteinAI/RFdiffusion/tree/main/docker
docker	https://github.com/OpenProteinAI/RFdiffusion/tree/main/docker
env	https://github.com/OpenProteinAI/RFdiffusion/tree/main/env
env	https://github.com/OpenProteinAI/RFdiffusion/tree/main/env
examples	https://github.com/OpenProteinAI/RFdiffusion/tree/main/examples
examples	https://github.com/OpenProteinAI/RFdiffusion/tree/main/examples
helper_scripts	https://github.com/OpenProteinAI/RFdiffusion/tree/main/helper_scripts
helper_scripts	https://github.com/OpenProteinAI/RFdiffusion/tree/main/helper_scripts
img	https://github.com/OpenProteinAI/RFdiffusion/tree/main/img
img	https://github.com/OpenProteinAI/RFdiffusion/tree/main/img
rfdiffusion	https://github.com/OpenProteinAI/RFdiffusion/tree/main/rfdiffusion
rfdiffusion	https://github.com/OpenProteinAI/RFdiffusion/tree/main/rfdiffusion
scripts	https://github.com/OpenProteinAI/RFdiffusion/tree/main/scripts
scripts	https://github.com/OpenProteinAI/RFdiffusion/tree/main/scripts
tests	https://github.com/OpenProteinAI/RFdiffusion/tree/main/tests
tests	https://github.com/OpenProteinAI/RFdiffusion/tree/main/tests
.gitignore	https://github.com/OpenProteinAI/RFdiffusion/blob/main/.gitignore
.gitignore	https://github.com/OpenProteinAI/RFdiffusion/blob/main/.gitignore
LICENSE	https://github.com/OpenProteinAI/RFdiffusion/blob/main/LICENSE
LICENSE	https://github.com/OpenProteinAI/RFdiffusion/blob/main/LICENSE
README.md	https://github.com/OpenProteinAI/RFdiffusion/blob/main/README.md
README.md	https://github.com/OpenProteinAI/RFdiffusion/blob/main/README.md
setup.py	https://github.com/OpenProteinAI/RFdiffusion/blob/main/setup.py
setup.py	https://github.com/OpenProteinAI/RFdiffusion/blob/main/setup.py
README	https://github.com/OpenProteinAI/RFdiffusion
License	https://github.com/OpenProteinAI/RFdiffusion
	https://github.com/OpenProteinAI/RFdiffusion#rfdiffusion
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/diffusion_protein_gradient_2.jpg
	https://github.com/OpenProteinAI/RFdiffusion#description
the RFdiffusion paper	https://www.biorxiv.org/content/10.1101/2022.12.09.519842v1
	https://github.com/OpenProteinAI/RFdiffusion#table-of-contents
RFdiffusion	https://github.com/OpenProteinAI/RFdiffusion#rfdiffusion
Description	https://github.com/OpenProteinAI/RFdiffusion#description
Table of contents	https://github.com/OpenProteinAI/RFdiffusion#table-of-contents
Getting started / installation	https://github.com/OpenProteinAI/RFdiffusion#getting-started--installation
Conda Install SE3-Transformer	https://github.com/OpenProteinAI/RFdiffusion#conda-install-se3-transformer
Get PPI Scaffold Examples	https://github.com/OpenProteinAI/RFdiffusion#get-ppi-scaffold-examples
Usage	https://github.com/OpenProteinAI/RFdiffusion#usage
Running the diffusion script	https://github.com/OpenProteinAI/RFdiffusion#running-the-diffusion-script
Basic execution - an unconditional monomer	https://github.com/OpenProteinAI/RFdiffusion#basic-execution---an-unconditional-monomer
Motif Scaffolding	https://github.com/OpenProteinAI/RFdiffusion#motif-scaffolding
The "active site" model holds very small motifs in place	https://github.com/OpenProteinAI/RFdiffusion#the-active-site-model-holds-very-small-motifs-in-place
The inpaint_seq flag	https://github.com/OpenProteinAI/RFdiffusion#the-inpaint_seq-flag
A note on diffuser.T	https://github.com/OpenProteinAI/RFdiffusion#a-note-on-diffusert
Partial diffusion	https://github.com/OpenProteinAI/RFdiffusion#partial-diffusion
Binder Design	https://github.com/OpenProteinAI/RFdiffusion#binder-design
Practical Considerations for Binder Design	https://github.com/OpenProteinAI/RFdiffusion#practical-considerations-for-binder-design
Fold Conditioning	https://github.com/OpenProteinAI/RFdiffusion#fold-conditioning
Generation of Symmetric Oligomers	https://github.com/OpenProteinAI/RFdiffusion#generation-of-symmetric-oligomers
Using Auxiliary Potentials	https://github.com/OpenProteinAI/RFdiffusion#using-auxiliary-potentials
Symmetric Motif Scaffolding.	https://github.com/OpenProteinAI/RFdiffusion#symmetric-motif-scaffolding
RFpeptides macrocycle design	https://github.com/OpenProteinAI/RFdiffusion#macrocyclic-peptide-design-with-rfpeptides
A Note on Model Weights	https://github.com/OpenProteinAI/RFdiffusion#a-note-on-model-weights
Things you might want to play with at inference time	https://github.com/OpenProteinAI/RFdiffusion#things-you-might-want-to-play-with-at-inference-time
Understanding the output files	https://github.com/OpenProteinAI/RFdiffusion#understanding-the-output-files
Docker	https://github.com/OpenProteinAI/RFdiffusion#docker
Conclusion	https://github.com/OpenProteinAI/RFdiffusion#conclusion
	https://github.com/OpenProteinAI/RFdiffusion#getting-started--installation
Google Colab Notebook	https://colab.research.google.com/github/sokrypton/ColabDesign/blob/v1.1.1/rf/examples/diffusion.ipynb
	https://github.com/OpenProteinAI/RFdiffusion#conda-install-se3-transformer
Anaconda or Miniconda	https://conda.io/projects/conda/en/latest/user-guide/install/index.html
NVIDIA's implementation of SE(3)-Transformers	https://developer.nvidia.com/blog/accelerating-se3-transformers-training-using-an-nvidia-open-source-model-implementation/
	https://github.com/OpenProteinAI/RFdiffusion#get-ppi-scaffold-examples
	https://github.com/OpenProteinAI/RFdiffusion#usage
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/main.png
	https://github.com/OpenProteinAI/RFdiffusion#running-the-diffusion-script
Hydra configs	https://hydra.cc/docs/configure_hydra/intro/
	https://github.com/OpenProteinAI/RFdiffusion#basic-execution---an-unconditional-monomer
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/cropped_uncond.png
	https://github.com/OpenProteinAI/RFdiffusion#motif-scaffolding
Constrained Hallucination and RFjoint Inpainting	https://www.science.org/doi/10.1126/science.abn2100#:~:text=The%20binding%20and%20catalytic%20functions%20of%20proteins%20are,the%20fold%20or%20secondary%20structure%20of%20the%20scaffold.
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/motif.png
	https://github.com/OpenProteinAI/RFdiffusion#the-active-site-model-holds-very-small-motifs-in-place
	https://github.com/OpenProteinAI/RFdiffusion#the-inpaint_seq-flag
	https://github.com/OpenProteinAI/RFdiffusion#a-note-on-diffusert
	https://github.com/OpenProteinAI/RFdiffusion#partial-diffusion
Vazquez-Torres et al., BioRxiv 2022	https://www.biorxiv.org/content/10.1101/2022.12.10.519862v4.abstract
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/partial.png
	https://github.com/OpenProteinAI/RFdiffusion#binder-design
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/binder.png
	https://github.com/OpenProteinAI/RFdiffusion#practical-considerations-for-binder-design
	https://github.com/OpenProteinAI/RFdiffusion#selecting-a-target-site
	https://github.com/OpenProteinAI/RFdiffusion#truncating-your-target-protein
	https://github.com/OpenProteinAI/RFdiffusion#picking-hotspots
	https://github.com/OpenProteinAI/RFdiffusion#binder-design-scale
	https://github.com/OpenProteinAI/RFdiffusion#sequence-design-for-binders
this GitHub repo	https://github.com/nrbennet/dl_binder_design
	https://github.com/OpenProteinAI/RFdiffusion#binder-design-filtering
here	https://github.com/nrbennet/dl_binder_design
	https://github.com/OpenProteinAI/RFdiffusion#fold-conditioning
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/fold_cond.png
Liu et al., 2024	https://www.biorxiv.org/content/10.1101/2024.07.16.603789v1
	https://github.com/OpenProteinAI/RFdiffusion#generation-of-symmetric-oligomers
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/olig2.png
	https://github.com/OpenProteinAI/RFdiffusion#using-auxiliary-potentials
	https://github.com/OpenProteinAI/RFdiffusion#symmetric-motif-scaffolding
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/sym_motif.png
	https://github.com/OpenProteinAI/RFdiffusion#macrocyclic-peptide-design-with-rfpeptides
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/rfpeptides_fig1.png
	https://github.com/OpenProteinAI/RFdiffusion#rfpeptides-binder-design
	https://github.com/OpenProteinAI/RFdiffusion/blob/main/img/rfpeptides_binder.png
	https://github.com/OpenProteinAI/RFdiffusion#rfpeptides-monomer-design
	https://github.com/OpenProteinAI/RFdiffusion#a-note-on-model-weights
	https://github.com/OpenProteinAI/RFdiffusion#things-you-might-want-to-play-with-at-inference-time
	https://github.com/OpenProteinAI/RFdiffusion#understanding-the-output-files
	https://github.com/OpenProteinAI/RFdiffusion#docker
official Docker docs	https://docs.docker.com/get-docker/
Finch	https://github.com/runfinch/finch
	https://github.com/OpenProteinAI/RFdiffusion#conclusion
Readme	https://github.com/OpenProteinAI/RFdiffusion#readme-ov-file
View license	https://github.com/OpenProteinAI/RFdiffusion#License-1-ov-file
Please reload this page	https://github.com/OpenProteinAI/RFdiffusion
Activity	https://github.com/OpenProteinAI/RFdiffusion/activity
Custom properties	https://github.com/OpenProteinAI/RFdiffusion/custom-properties
0 forks	https://github.com/OpenProteinAI/RFdiffusion/forks
Report repository	https://github.com/contact/report-content?content_url=https%3A%2F%2Fgithub.com%2FOpenProteinAI%2FRFdiffusion&report=OpenProteinAI+%28user%29
Releases	https://github.com/OpenProteinAI/RFdiffusion/releases
Packages 0	https://github.com/orgs/OpenProteinAI/packages?repo_name=RFdiffusion
Please reload this page	https://github.com/OpenProteinAI/RFdiffusion
Contributors	https://github.com/OpenProteinAI/RFdiffusion/graphs/contributors
Please reload this page	https://github.com/OpenProteinAI/RFdiffusion
	https://github.com
Terms	https://docs.github.com/site-policy/github-terms/github-terms-of-service
Privacy	https://docs.github.com/site-policy/privacy-policies/github-privacy-statement
Security	https://github.com/security
Status	https://www.githubstatus.com/
Community	https://github.community/
Docs	https://docs.github.com/
Contact	https://support.github.com?tags=dotcom-footer

Viewport: width=device-width

URLs of crawlers that visited me.