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You can specify wildcard and glob patterns in digger.yml to include multiple directories into a project. A common use case for this is if you have multiple environment folders and they import from a common modules directory: 
development/
  main.tf
production/
  main.tf
modules/
  shared_moduleA/
  dev_only_module/
Patterns starting with . (e.g., ./modules/** or ../modules/**) are resolved relative to the project directory. All other patterns are resolved relative to the digger.yml location.
If you wanted to trigger plans for all modules/ folder in both dev and prod projects you would include them in the include_patterns key. Similarly you put anything which you want to ignore in the exclude_patterns key ( exclude takes precedence over includes). Example using patterns relative to project directory: 
projects:
  - name: dev
    dir: ./development
    include_patterns: ["../modules/**"]  # Resolved from ./development/
    workflow: default_workflow
  - name: prod
    dir: ./production
    include_patterns: ["../modules/**"]  # Resolved from ./production/
    exclude_patterns: ["../modules/dev_only_module/**"]
Example using patterns relative to digger.yml location: 
projects:
  - name: dev
    dir: ./development
    include_patterns: ["modules/**"]  # Resolved from digger.yml location
    workflow: default_workflow
  - name: prod
    dir: ./production
    include_patterns: ["modules/**"]
    exclude_patterns: ["modules/dev_only_module/**"]
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