salilab/hmc

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Python
Created over 6 years ago
Updated over 2 years ago

salilab/hmc

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IMP module for Hamiltonian Monte Carlo

imp

The Integrative Modeling Platform

cryptosite

Library for prediction of cryptic binding sites

pmi

Python Modeling Interface

rmf

The library to support reading and writing of RMF files.

metamodeling

saliweb

Simple framework for web services in the Sali lab

modloop

Web server for automated modeling of loops in protein structures

allosmod-lib

Protocol to model with allostery

foxs

Web server for fast SAXS profile computation with Debye formula

itcell

Integrative T-cell epitope prediction web service

conda-recipes

Recipes for the conda package manager

pathway_mapping

Python modules, scripts, and examples for integrative pathway mapping

Jupyter Notebook

npctransport

IMP module for simulating transport through the NPC.

SOAP

Python SOAP framework for calculating statistically optimized atomic potentials

imp-sampcon

Scripts to assess sampling convergence and exhaustiveness

imp_tutorial

Tutorial that demonstrates the modeling of RNA Polymerase II using Electron Microscopy density and chemical crosslinks

PMI_analysis

foxsdock

Web service for macromolecular docking with SAXS profiles

IHMValidation

Validation software for integrative models deposited to PDB

bayesian_hdx

Support code for HDX data reduction

HMCUtilities.jl

itcell-lib

Integrative T-cell epitope prediction

rmf_chimerax

ChimeraX plugin to read and visualize RMF files

imp_website

Website for the IMP project

zotero

Styles and other files used in the Sali lab with Zotero

allosmod

Web service for simulations on a user-provided energy landscape

multifoxs

Web server for multi-state modeling with SAXS profiles

threading

IMP module to sample sequence threading

modbase_utils

Utilities for interacting with the ModBase database

cryptosite-web

Web server for prediction of cryptic binding sites

homebrew-salilab

🍻 Sali Lab formulae for homebrew

domino3

Experimental DOMINO variant using traditional inference

imp_biological_systems

A repository for scripts and data for applying IMP to biological systems.

asgl

Program for preparing all sorts of PostScript plots from simple data files

mist

Mass spectrometry interaction STatistics

mist-web

Mass spectrometry interaction STatistics (web interface)

cross_linking_tutorial

Introduction to working with cross-linking data using IMP

Jupyter Notebook