Benchling Molecule API
A Molecule represents a small molecule chemical compound in Benchling that is imported either as a MolFile orusing SMILES (Simplified Molecular Input Line Entry System) notation. Molecules are registry entities that canbe registered, searched, and linked to other items. When present, the `canonicalSmiles` field provides astandardized SMILES representation for comparison, while originalSmiles preserves the user-provided SMILES andmay be null if SMILES was not provided at creation. Molecules support custom fields via schemas and can beorganized in folders and projects.
Benchling Molecule API is one of 203 APIs that Benchling publishes on the APIs.io network, described by a machine-readable OpenAPI specification.
Tagged areas include Molecule. The published artifact set on APIs.io includes an OpenAPI specification, API documentation, an API reference, authentication docs, rate-limit docs, and a changelog.
This API exposes
9 operations
across 8 paths,
and defines 65 schemas.
It is described by OpenAPI 3.2.0, at version 2.0.0.
Requests are made against a single base URL, /api/v3.
The identity and technical contract details declared by the specification.
IMolecule
object
17 properties
AppInstallation
object
Represents an installed Benchling App on a tenant, created from an AppDefinitionVersion. App installations store tenant-specific configuration values and featu…
10 properties
ProjectRef
object
2 properties
CustomField
object
A name-value pair for storing additional metadata on objects that support custom fields. CustomFields provide a flexible way to attach arbitrary string data to…
3 properties
User
object
Represents a human user in Benchling who can log in, perform actions, and own data. Users belong to one or more Organizations and may be members of Teams withi…
9 properties
SchemaFieldValue
object
Represents a field value on a schematized object, pairing a fieldDefinition (describing the field's type and constraints) with its actual value (a BenchlingVal…
5 properties
AppConfigWorkflowTaskSchemaOutput
object
Defines the output field structure for a workflow task schema configuration.
2 properties
ResourceAppConfigSpec
object
Specifies that an app configuration field should reference a Benchling object instance. The type field identifies the kind of object required, matching the Ben…
3 properties
DateTimeValue
object
A type that represents datetime values.
2 properties
RegistrationOrigin
object
Captures the provenance of an entity's registration into the registry. The originEntry links to the DocumentLike (typically an entry or notebook) from which th…
3 properties
FolderRef
object
2 properties
FloatAppConfigSpec
object
Specifies that an app configuration field should accept a floating-point number.
3 properties
WorkflowTaskSchemaAppConfigSpec
object
Specifies that an app configuration field should reference a workflow task schema. Kept separate from SchemaAppConfigSpec because it supports output field defi…
4 properties
EntitySchemaAppConfigSpec
object
Specifies that an app configuration field should reference an entity schema. Kept separate from SchemaAppConfigSpec because it carries a subtype constraint.
4 properties
AppConfigFieldDefinition
object
Defines a field within an app configuration that references schema fields. Specifies the field name, type, whether it accepts multiple values, and whether it i…
7 properties
JsonValue
object
A type that represents JSON values.
2 properties
TextAndUrlValue
object
A type that represents text (string) values with an associated URL.
3 properties
SchemaAppConfigSpec
object
Specifies that an app configuration field should reference one of the schema types that share a common structure: containerschema, plateschema, locationschema,…
4 properties
JsonAppConfigSpec
object
Specifies that an app configuration field should accept a JSON value.
2 properties
CanvasFeatureSpec
object
Defines a canvas feature for a Benchling App, which provides an embedded UI surface within entries or templates. Canvases allow apps to render custom interacti…
4 properties
ObjectLinkValue
object
A type that represents links to other objects.
2 properties
InternalServerError
object
6 properties
5 required
DecimalValue
object
A type that represents decimal value as strings.
3 properties
EntitySchemaRef
object
2 properties
BooleanAppConfigSpec
object
Specifies that an app configuration field should accept a boolean value.
2 properties
PrincipalRef
object
2 properties
TextAppConfigSpec
object
Specifies that an app configuration field should accept a text string.
3 properties
RegistryRef
object
2 properties
SchemaFieldDefinitionRef
object
2 properties
ObjectLinkListValue
object
A type that represents a list of links to other objects.
2 properties
LegacyAppInstallation
object
Represents a legacy (pre-App Store) Benchling App installation on a tenant. Legacy apps are configured directly with webhook URLs and configuration specs rathe…
17 properties
UpdateMoleculeInputWithPathParams
object
14 properties
1 required
DateAppConfigSpec
object
Specifies that an app configuration field should accept a date value.
2 properties
AppMessageSubscription
object
Represents an app's subscription to a specific event type, specifying the event type and how notifications should be delivered (see DeliveryMethod).
3 properties
DropdownAppConfigSpec
object
Specifies that an app configuration field should be a dropdown with predefined options.
3 properties
DateValue
object
A type that represents date values.
2 properties
ArrayAppConfigSpec
object
Specifies that an app configuration field should accept an array of values.
5 properties
MoleculePaginatedList
object
2 properties
BooleanValue
object
A type that represents boolean values.
2 properties
PrincipalUnpaginatedList
object
1 property
AssayRunFeatureSpec
object
Defines an assay run feature for a Benchling App, allowing the app to process or generate lab automation run data.
3 properties
AppHomepageFeatureSpec
object
Defines a homepage feature for a Benchling App, providing a dedicated landing page within the Benchling application for the app's functionality.
3 properties
BulkImport
object
1 property
1 required
UpdateMoleculeInput
object
13 properties
DocumentLikeRef
object
2 properties
AssayRunFeatureValue
object
Links an app's assay run feature to a specific resource (typically a run schema) on a tenant. The featureId identifies the feature from the app definition, and…
3 properties
ChemicalStructureInput
object
2 properties
2 required
ArrayAppConfigOption
object
A config option nested within an array-type app configuration field. Structurally identical to AppConfigOption — it has a name and a configSpec — but its confi…
4 properties
IntegerValue
object
A type that represents integer values.
2 properties
GeneralError
object
5 properties
5 required
ServicePrincipal
object
Represents a non-human identity used for system integrations and automated processes within Benchling. Service principals act as the identity for service accou…
4 properties
FieldValueInput
object
1 property
1 required
AsyncTaskLink
object
2 properties
IntegerAppConfigSpec
object
Specifies that an app configuration field should accept an integer value.
3 properties
ArrayValue
object
A type that represents a list of BenchlingValues, used for multi-value cells (e.g. alias columns).
2 properties
AppConfigOption
object
Defines a configuration option in an app's configuration schema. Each option has a name, optional description, and a configSpec defining the expected value typ…
4 properties
AppConfigDropdownOption
object
Defines an option within a dropdown-type app configuration field.
4 properties
ObjectRef
object
2 properties
TextValue
object
A type that represents text (string) values.
2 properties
DateTimeAppConfigSpec
object
Specifies that an app configuration field should accept a datetime value.
2 properties
SecureTextAppConfigSpec
object
Specifies that an app configuration field should accept secure (encrypted) text. Used for sensitive data like API keys or credentials.
2 properties
CreateMoleculeInput
object
11 properties
3 required
The full machine-readable OpenAPI contract behind this narrative.
Other APIs Benchling publishes across the network.
