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\brief Simulation of transport through the Nuclear Pore Complex

Build Status codecov

The npctransport module is a module for simulating transport through the NPC.

Authors: Barak Raveh, Daniel Russel

License:

Publications: Timney*, Raveh* et al., JCB 2016

Building from source in a nutshell (see https://integrativemodeling.org/latest/doc/manual/installation.html for general IMP installation instruction):

  • Make sure IMP prerequisites are installed
  • Install the CGAL package
  • Install the protobuf package
  • Download IMP source code as explained in the installation manual
  • Build IMP according to online instructions
  • The npctransport installation can be tested using ctest, eg - "ctest -R npctransport"

Versions: 4.5

  • optimization of ball size used to define close pair range results in faster runs for larger particles

fg_simulation: run NPC transport simulations {#fg_simulation_bin}

The fg_simulation command line tool can be used to run simulations of NPC FG repeat domains using this module. For an example of its use, see our 2018 study in Nature.