IMP Reference Guide
2.19.0
The Integrative Modeling Platform
|
![]() ![]() | Base functionality and abstract base classes for representation, scoring and sampling |
![]() ![]() ![]() | General purpose algebraic and geometric methods that are expected to be used by a wide variety of IMP modules |
![]() ![]() ![]() | Functionality for loading, creating, manipulating and scoring atomic structures |
![]() ![]() ![]() | Restraints for handling electron microscopy maps |
![]() ![]() ![]() | Support for developing and analyzing benchmarks of IMP code |
![]() ![]() ![]() | Make CGAL functionality available to IMP |
![]() ![]() ![]() | Generate cyclic atomic structures using cryo-electron microscopy data |
![]() ![]() ![]() | Various classes to hold sets of particles |
![]() ![]() ![]() | Basic functionality that is expected to be used by a wide variety of IMP users |
![]() ![]() ![]() | Output IMP model data in various file formats |
![]() ![]() ![]() | Divide-and-conquer inferential optimization in discrete space |
![]() ![]() ![]() | Basic utilities for handling cryo-electron microscopy 3D density maps |
![]() ![]() ![]() | Restraints using electron microscopy 2D images (class averages) |
![]() ![]() ![]() | Build assembly models consistent with EM images (class averages) |
![]() ![]() ![]() ![]() | Utility functions to extract min/max from the inputs |
![]() ![]() ![]() ![]() | Utility functions to handle cross links |
![]() ![]() ![]() ![]() | Utility functions to handle CSV files |
![]() ![]() ![]() ![]() | Utility functions to manage SQL databases with sqlite3 |
![]() ![]() ![]() ![]() | Classes to manage a model using DOMINO |
![]() ![]() ![]() ![]() | Utility functions that are supposedly not EMageFit-specific |
![]() ![]() ![]() ![]() | Classes for Monte Carlo sampling using rigid body relative moves |
![]() ![]() ![]() ![]() | Utility functions to handle restraints |
![]() ![]() ![]() ![]() | Utility functions to handle sampling |
![]() ![]() ![]() ![]() | Utility functions to store and retrieve solution information |
![]() ![]() ![]() ![]() | Utility functions |
![]() ![]() ![]() | Example module |
![]() ![]() ![]() | Determine small angle X-ray (SAXS) profiles |
![]() ![]() ![]() | Several general purpose optimizers from the GNU Scientific Library (GSL) |
![]() ![]() ![]() | Pairwise docking incorporating additional data |
![]() ![]() ![]() | Inferential scoring building on methods developed as part of the Inferential Structure Determination software (ISD) |
![]() ![]() ![]() ![]() | Classes to handle ISD statistics files |
![]() ![]() ![]() ![]() | Tools for handling Gaussian Mixture Models |
![]() ![]() ![]() ![]() | Classes to store output from replicas |
![]() ![]() ![]() ![]() | Classes to handle TALOS files or folders |
![]() ![]() ![]() ![]() | Classes to handle TBL files |
![]() ![]() ![]() ![]() | Miscellaneous utilities |
![]() ![]() ![]() | Functionality for dealing with kinematic mechanical structures |
![]() ![]() ![]() | Interface to the GPL k-means clustering library |
![]() ![]() ![]() | Miscellaneous functionality that is not expected to be used by many IMP users |
![]() ![]() ![]() | Support for output of models in mmCIF format |
![]() ![]() ![]() ![]() | Classes to represent data structures used in mmCIF |
![]() ![]() ![]() ![]() | Classes to extract metadata for various input files |
![]() ![]() ![]() ![]() | Map IMP restraints to mmCIF categories |
![]() ![]() ![]() ![]() | Utility functions for IMP.mmcif |
![]() ![]() ![]() | Interface to the Modeller comparative modeling package |
![]() ![]() ![]() | Code that uses the MPI parallel library |
![]() ![]() ![]() | Functionality for handling multi-state models |
![]() ![]() ![]() | Fitting atomic structures into a cryo-electron microscopy density map |
![]() ![]() ![]() | Restraints designed for modeling the Nuclear Pore Complex (NPC) |
![]() ![]() ![]() | |
![]() ![]() ![]() | Distribute IMP tasks to multiple processors or machines |
![]() ![]() ![]() ![]() | Classes for communicating from the manager to workers |
![]() ![]() ![]() ![]() | Subprocess handling |
![]() ![]() ![]() ![]() | Utilities for the IMP.parallel module |
![]() ![]() ![]() | Initial peptide docking |
![]() ![]() ![]() | Python classes to represent, score, sample and analyze models |
![]() ![]() ![]() ![]() | Mapping between FASTA one-letter codes and residue types |
![]() ![]() ![]() ![]() | Tools for clustering and cluster analysis |
![]() ![]() ![]() ![]() | Create movers and set up constraints for PMI objects |
![]() ![]() ![]() ![]() | Utility classes and functions for reading and storing PMI files |
![]() ![]() ![]() ![]() | Protocols for sampling structures and analyzing them |
![]() ![]() ![]() ![]() | Support for the mmCIF file format |
![]() ![]() ![]() ![]() | Classes for writing output files and processing them |
![]() ![]() ![]() ![]() | Classes to handle different kinds of restraints |
![]() ![]() ![]() ![]() | Sampling of the system |
![]() ![]() ![]() ![]() | Miscellaneous utilities |
![]() ![]() ![]() ![]() | Set of Python classes to create a multi-state, multi-resolution IMP hierarchy |
![]() ![]() ![]() | Legacy PMI1 module to represent, score, sample and analyze models |
![]() ![]() ![]() ![]() | Tools for clustering and cluster analysis |
![]() ![]() ![]() ![]() | Utility classes and functions for reading and storing PMI files |
![]() ![]() ![]() ![]() | Protocols for sampling structures and analyzing them |
![]() ![]() ![]() ![]() | Classes for attaching metadata to PMI objects |
![]() ![]() ![]() ![]() | Support for the mmCIF file format |
![]() ![]() ![]() ![]() | Nonmaintained code |
![]() ![]() ![]() ![]() | Classes for writing output files and processing them |
![]() ![]() ![]() ![]() | Representation of the system |
![]() ![]() ![]() ![]() | Classes to handle different kinds of restraints |
![]() ![]() ![]() ![]() | Sampling of the system |
![]() ![]() ![]() ![]() | Miscellaneous utilities |
![]() ![]() ![]() ![]() | Set of python classes to create a multi-state, multi-resolution IMP hierarchy |
![]() ![]() ![]() | Support for the RMF file format for storing hierarchical molecular data and markup |
![]() ![]() ![]() | Sampling of sidechain rotamers |
![]() ![]() ![]() | Sampling exhaustiveness protocol |
![]() ![]() ![]() | Support for small angle X-ray scattering (SAXS) data |
![]() ![]() ![]() | A method for merging SAXS profiles using Gaussian processes |
![]() ![]() ![]() | Composable functors to implement scores via compile-time composition |
![]() ![]() ![]() | A space to add temporary classes while experimenting without forcing you to create your own module |
![]() ![]() ![]() | Classes, functions and executables for modeling of the Spindle Pole Body |
![]() ![]() ![]() | Code to compute statistical measures |
![]() ![]() ![]() | Support for basic symmetry, such as periodic boundary conditions (PBC) |
![]() ![]() ![]() | Support for running tests of IMP functionality |
![]() ![]() |