Sali Lab

All

81 repositories

modbase_utils
Public
Utilities for interacting with the ModBase database
Python
•
MIT License
•3•1•0•0•Updated Jan 2, 2025Jan 2, 2025
imp
Public
The Integrative Modeling Platform
structural-biology protein-structure integrative-modeling python c-plus-plus
C++
•
GNU General Public License v3.0
•30•74•63•1•Updated Dec 20, 2024Dec 20, 2024
IMP.bff
Public
IMP's Bayesian Fluorescence Framework
C++
•
GNU Lesser General Public License v2.1
•1•0•0•0•Updated Dec 20, 2024Dec 20, 2024
pmi
Public
Python Modeling Interface
structural-biology protein-structure integrative-modeling python
Python
•11•12•37•1•Updated Dec 20, 2024Dec 20, 2024
homebrew-salilab
Public
🍻 Sali Lab formulae for homebrew
formulae science ruby homebrew
Ruby
•
Creative Commons Attribution Share Alike 4.0 International
•0•1•0•0•Updated Dec 20, 2024Dec 20, 2024
imp_nightly_builds
Public
Infrastructure to build and test IMP on a nightly basis
Python
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 19, 2024Dec 19, 2024
imp_tutorial
Public
Tutorial that demonstrates the modeling of RNA Polymerase II using Electron Microscopy density and chemical crosslinks
integrative-modeling python tutorial
Python
•
Creative Commons Attribution Share Alike 4.0 International
•5•3•1•1•Updated Dec 15, 2024Dec 15, 2024
profiling_tutorial
Public
Tutorial on CPU profiling of IMP code using Google's gperftools
tutorial profiling integrative-modeling
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 13, 2024Dec 13, 2024
tutorial_tools
Public
🛠 Support infrastructure useful for all IMP tutorials
python tutorial build-tools
Python
•
GNU Lesser General Public License v2.1
•0•0•0•0•Updated Dec 13, 2024Dec 13, 2024
imp_deposition_tutorial
Public
Introduction to depositing IMP models in PDB-Dev
tutorial archival integrative-modeling deposition binder-ready
Jupyter Notebook
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_valgrind_tutorial
Public
Tutorial on debugging IMP code with Valgrind
c-plus-plus tutorial integrative-modeling
CMake
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_using_cpp_tutorial
Public
Tutorial on using IMP as a library in other C++ projects
c-plus-plus tutorial integrative-modeling
CMake
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_spatiotemporal_tutorial
Public
Tutorial for computing spatiotemporal integrative models in IMP
Python
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_coding_tutorial
Public
Introduction to writing IMP code
c-plus-plus tutorial integrative-modeling
Python
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_brownian_dynamics_tutorial
Public
Tutorial for running Brownian dynamics simulations using IMP
tutorial integrative-modeling brownian-dynamics
Jupyter Notebook
•
Creative Commons Attribution Share Alike 4.0 International
•1•0•0•0•Updated Dec 12, 2024Dec 12, 2024
imp_analysis_tutorial
Public
Python
•
Other
•2•0•1•0•Updated Dec 12, 2024Dec 12, 2024
foxs_tutorial
Public
Tutorial for fitting against SAXS data using FoXS and MultiFoXS
tutorial command-line small-angle-xray integrative-modeling
Jupyter Notebook
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
cross_linking_tutorial
Public
Introduction to working with cross-linking data using IMP
tutorial structural-biology integrative-modeling binder-ready
Jupyter Notebook
•
Creative Commons Attribution Share Alike 4.0 International
•0•1•0•0•Updated Dec 12, 2024Dec 12, 2024
actin_tutorial
Public
IMP/PMI tutorial, modeling the complex of actin and tropomodulin-gelsolin chimera
tutorial integrative-modeling
Python
•
Creative Commons Attribution Share Alike 4.0 International
•0•0•1•0•Updated Dec 12, 2024Dec 12, 2024
imp_website
Public
Website for the IMP project
website php
PHP
•
Creative Commons Attribution Share Alike 4.0 International
•1•0•0•0•Updated Dec 12, 2024Dec 12, 2024
EnsembleInference.jl
Public
Julia
•
MIT License
•0•0•1•5•Updated Dec 10, 2024Dec 10, 2024
foxs
Public
Web server for fast SAXS profile computation with Debye formula
JavaScript
•
GNU Lesser General Public License v2.1
•0•3•0•0•Updated Dec 10, 2024Dec 10, 2024
rmf
Public
The library to support reading and writing of RMF files.
python structural-biology protein-structure integrative-modeling c-plus-plus
C++
•
Apache License 2.0
•0•8•7•0•Updated Dec 4, 2024Dec 4, 2024
IHMValidation
Public
Validation software for integrative models deposited to PDB
HTML
•
MIT License
•2•2•32•1•Updated Nov 14, 2024Nov 14, 2024
optrep
Public
IMP module for optimal coarse-grained bead representation
Python
•
GNU Lesser General Public License v2.1
•1•0•5•0•Updated Nov 11, 2024Nov 11, 2024
domino3
Public
Experimental DOMINO variant using traditional inference
C++
•
GNU Lesser General Public License v2.1
•0•1•0•0•Updated Nov 11, 2024Nov 11, 2024
threading
Public
IMP module to sample sequence threading
Python
•0•1•0•1•Updated Nov 10, 2024Nov 10, 2024
SSEThread
Public
Integrative threading of protein structure using secondary structure elements
Python
•
GNU Lesser General Public License v2.1
•0•0•0•0•Updated Nov 9, 2024Nov 9, 2024
npctransport
Public
IMP module for simulating transport through the NPC.
C++
•2•3•6•0•Updated Nov 8, 2024Nov 8, 2024
imp-sampcon
Public
Scripts to assess sampling convergence and exhaustiveness
Python
•
GNU General Public License v2.0
•7•3•4•1•Updated Nov 8, 2024Nov 8, 2024