Collection settings should store the data in the value property

All the settings are stored in the settings collection in the way

```
{ name: settingName, value: settingData }
```

But collections have their data in the main object, so they are discarded when applying the filter using the setting manager. That should be updated and also update all the parts where the collection settings are used right now.

Start by locating the settings collection, the setting manager, and the filter application code described in the issue. Trace how collection data is read and applied, then update the other collection-setting uses consistently. Done means collection settings retain their data through filtering and the existing settings behavior remains intact.

Written by the indexing model from the issue text.