HbMap2grace
This software takes xpm files produced by gmx hbond and converts them into a
plottable xvg file.
LMDM
Software
Tools that grew out of concrete needs in the laboratory and were released as open source. All of them live in the organisation's GitHub, with installation and usage instructions in each repository.
Porcupine
Shows the vectors obtained from molecular dynamics principal component analysis, or from normal modes, using the VMD program.
ProtCHOIR
A pipeline for modelling homo-oligomeric complexes.
SurfinMD
SurfinMD can be used to calculate the surface of contact between a drug and a protein, separating the results by different properties and by amino-acid residues.