Releases · ViennaRNA/forgi

This release adds a bunch of new stuff to the forgi library:

CoarseGrainRNA now has a member cg.virtual_atoms() which is used for caching of virtual atom positions.
forgi.threedee.utilities.graph_pdb.virtual_atoms() now only calculates atom positions when they are needed.
The two changes together lead to a great speed improvement.
The subpackage forgi.visual was started for easy visualization of RNA using fornac or matplotlib.
This subpackage is in an early development stage and will be improved in future versions.
The subpackage forgi.projection was added to work with projections of CoarseGrainedRNA objects onto a 2D plane.
Now forgi.threedee.model.average_atom_positions is used for all virtual atom calculations
while average_stem_vres_positions has been removed. This leads to more consistent virtual atom calculations.
Further more the values in average_atom_positions have been recalculated.
In forgi.threedee.model.rmsd, the functions centered_rmsd and centered_drmsd have been
deprecated and deleted respectively. Use rmsd(cg1,cg2) for a centered RMSD. This removes code duplication.
In forgi.threedee.model.comparison a ConfusionMatrix class was introduced for speedup with
repeated comparisons to the same reference.
Several smaller changes and improvements

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