Radius

[caominhtr]

As far as i know the way to visualize the pharmacophore feature is sphere shape, but i dont see the default radius that psearch current uses. Is there any way to modify that when building the pharmacophore model?

[DrrDom]

There is no classical feature radius. This alignment-free approach is somewhat different from others. A some sort of radius is a binning step (bin_step), which can be specified during model building (psearch) and database generation (gen_db) to perform screening (screen_db). This binning step add fuzziness in pharmacophore matching, but it works somewhat differently from a feature radius in alignment-based approaches. For visualization one may use any radius, but it can be specified explicitly to correspond to a binning step.