Core objects

A set of core JSON classes used in amorphys is described here.

The three key concepts in amorphys are:

1. Entity: represents a physical existence.
2. Relationship: represents a relationship between two Entity instances.
3. Context: represents a group of Entities and Relationships.

In addition, several supportive classes are defined to facilitate annotation; refer to URI-based reference, Classes for measurements, Description of protocol control and Variables and expressions.

Table of contents:

• Entity
  • Entity class
  • Types of entities
• Relationship
  • How Relationship works
  • Pre-defined relationship keys
  • Defining your own relationship key(s)
• Context
  • Context class
• Classes for measurements
  • Date
  • Time
  • Subject-related
  • Space
  • Quantity
  • Notes on unit usages
• URI-based reference
  • Referrable class
  • Individual class
  • Person class
  • License class
  • Citation class
• Description of protocol control
  • Overview
  • Unitary stimulus control
  • Sequence-type stimulus description
  • Context-dependent stimulus sequence
• Behavioral model for a subject
• Variables and expressions
  • Use of variables
  • Use of conditions
  • Expressions and formatters
  • Use of templates
• Supplementary documents
  • Predefined subclasses for Spatial
  • Predefined subclasses for Temporal
  • Predefined subclasses for Signal
  • Definition of your own entity class