Companion Programs

Name	Shorthand Description of Functionality
Moloc -h	produces just help output.
Gr2d	draws 2-dimensional plots of several curves.
Mabch	runs a MAB force-field minimization (or dynamics calculation) and is usually started from within Moloc.
Mcbch	runs a C-alpha force field minimization or dynamics calculation.
Mbcd	takes a pharmacophore file (.php), starts BIOCAD's HYPEDIT program to produce a hypothesis and issues a CATALYST database search.
Mol3d	produces a .sd file containing 3-dimensional coordinates from a 2-dimensional .sd file
Msmab	produces a file (.mab, .sd, or .tdt) of 3-dimensional structures from a list of smiles codes.
Mcnf	performs a conformation analysis for the structures of a .sd file.
Msrfvl	calculates surfaces volumes and additional descriptors for a set of structures given as .sd file.
Mtprgn, Mtprsml, Mtpr...	Several programs that produce a topological pharmacophore representations, perform similarity calculations, etc. They are used for database generation and mining, to perform diversity analyses for library design, and to produce topological pharmacophore descriptors for statistical model generation.
Mamber	generates input files of small molecules for the program AMBER.
Mdck	docks structures from a .sd file into a receptor cavity.
Movo	builds structures out of the fragments of libraries into a receptor cavity.
Mngsd	a manager for .sd-file handling
etc.	various programs for smaller tasks (clustering, filtering, ...)