Locations Of Files In Rosetta This page lists the trees of directories of each individula applications and scripts in Rosetta

Release Applications

Abinitio Application

• Name: AbinitioRelax.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/Abinitio 

Backrub Application

• Name: backrub.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/backrub 

Clustering Application

• Name: cluster.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/clustering 

Comparative Modeling

• Name: minirosetta.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/bundle 

Fixed Backbone Design Application

• Name: fixbb.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/design 

Docking Application

• Name: docking_protocol.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/docking 

Molecular Replacement

• Name: mr_protocols.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/electron_density 

Loops From Density

• Name: loops_from_density.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/electron_density 

Enzyme Design

• Name: enzyme_design.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/enzdes 

Flexible Peptide Docking

• Name: FlexPepDocking.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/flexpep_docking 

Idealization Application

• Name: idealize_jd2.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/idealization 

Ligand Docking Application

• Name:ligand_dock.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/ligand_docking 

Extract Atomtree Diffs

• Name:extract_atomtree_diffs.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/ligand_docking 

Loop Modeling

• Name:loopmodel.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/loop_modeling 

RosettaMatch Application

• Name:match.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/match 

Membrane Abinitio

• Name:membrane_abinitio2.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/membrane_abinitio 

Relaxation Application

• Name:relax.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/relaxation 

Rosetta Scripts

• Name:rosetta_scripts.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/rosetta_scripts 

Scenarios

• Names:
  1. FloppyTail.cc
  2. ca_to_allatom.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/scenarios 

Scoring Application

• Name:score_jd2.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/scoring 

Sequence Tolerance

• Name:sequence_tolerance.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/sequence_tolerance 

Scoring Application

• Name:SymDock.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/SymDock 

Symmetry

• Names:
  1. make_symmdef_file.pl
  2. make_symmdef_file_denovo.py
• Location in the source pakage:

  rosetta_source/src/apps/public/symmetry 

Silent File Applications

• Names:
  1. combine_silent.cc
  2. extract_pdbs.cc
• Location in the source pakage:

  rosetta_source/src/apps/public/SilentFileTools 

Release Scripts

Ligand Docking Supplementary Scripts

• Names:
  1. arls_impl.py
  2. arls.py
  3. assign_charges.py
  4. best_ifaceE.py
  5. get_scores.py
  6. pdb_to_molfile.py
  7. prune_atdiff_top5pct.py
• Location in the source pakage:

  rosetta_source/src/apps/public/ligand_docking 

PDB Scripts

• Name:
  1. addChain.pl
  2. cleanPdbCA.pl
  3. createTemplate.pl
  4. getCAcoords.pl
  5. getFastaFromCoords.pl
  6. getFirstChain.pl
  7. getPdb.pl
  8. removeChain.pl
  9. removeExtendedChain.pl
  10. removeTERs.pl
• Location in the source pakage:

  BioTools/