Bayesian Fluorescence Framework

imp_bff

Bayesian Fluorescence Framework (BFF) processes and analyzes fluorescence data. BFF contains functions to computed label distributions and forward models. Among other data the program imp_bff samples can sample biomolecular conformations restrained by experimental data by simulating fluorophore distributions around attachment sites and by comparing simulated observables to experimental data.

Inter-label distance score usage:

First, import the module:

import IMP.bff

import IMP.bff.restraints

Then, select the "score set", i.e., a set of distances that are used for score calculation from a FPS.JSON file:

fps_json_fn = str(root_dir / "screening.fps.json")

score_set = "inter"

Finally, create the restraint and add it to the model.

fret_restraint = IMP.bff.restraints.AVNetworkRestraintWrapper(
    hier, fps_json_fn,
    mean_position_restraint=True,
    score_set=score_set
)
fret_restraint.add_to_model()
output_objects.append(fret_restraint)

Info

Author(s): Thomas-Otavio Peulen

Maintainer: tpeulen

License: LGPL This library is free software; you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

Publications:

None