Clinical Genomic APIs for Oracle Healthcare Foundation

Retrieve Genome Assembly Reference Versions for Assembly Names

get

/ohfapi/cg/v3.3/genomeAssemblyRefVersions/byName

This endpoint supports the retrieval of Genomic Assembly Reference Versions for multiple Assembly/Alignment Names. It returns Genomic Assembly Reference Version information like Version Identifiers, Version Name and other associated information.

Request

Supported Media Types

application/json
application/xml

Query Parameters

limit(optional): integer(int32)

Number of rows to return

name: array

Collection Format: multi

Minimum Number of Items: 0

Maximum Number of Items: 2147483647

List of Assembly/Alignment Names

[0]: string

{
    "name":"name",
    "in":"query",
    "description":"List of Assembly/Alignment Names",
    "required":true,
    "type":"array",
    "items":{
        "type":"string"
    },
    "collectionFormat":"multi",
    "maxItems":2147483647,
    "minItems":0
}

offset(optional): integer(int32)

Row number to start from

Security

basicAuth: basic

Type: basic

Response

Supported Media Types

application/json
application/xml

200 Response

successful operation

Model for paginated collections of data.

Root Schema : PageableDetailedCollection

Type: object

Model for paginated collections of data.

Show Source

count(optional): integer(int64)

Number of objects in the 'items' collection.
hasMore(optional): boolean

Default Value: false

A boolean indicating if more pages are available.
invalidAssemblies(optional): array invalidAssemblies

List of Invalid Assemblies in request.
invalidGeneNames(optional): array invalidGeneNames

List of Invalid Genenames in request.
invalidHugoNames(optional): array invalidHugoNames

List of Invalid Hugonames in request.
invalidReferenceIds(optional): array invalidReferenceIds

List of Invalid Reference IDs in request.
items(optional): array items

A collection of paged items.
links(optional): array link

A collection of links containing hrefs to the current, next, and previous pages as applicable.
resourceType(optional): string

Identify the resource type

{
    "type":"object",
    "properties":{
        "resourceType":{
            "type":"string",
            "description":"Identify the resource type"
        },
        "items":{
            "type":"array",
            "xml":{
                "name":"items",
                "wrapped":true
            },
            "description":"A collection of paged items.",
            "items":{
                "$ref":"#/definitions/Serializable"
            }
        },
        "count":{
            "type":"integer",
            "format":"int64",
            "description":"Number of objects in the 'items' collection."
        },
        "hasMore":{
            "type":"boolean",
            "description":"A boolean indicating if more pages are available.",
            "default":false
        },
        "links":{
            "type":"array",
            "example":"{rel: 'next',href: '/patientapi/patients?limit=100&offset=300'}",
            "xml":{
                "name":"link",
                "wrapped":true
            },
            "description":"A collection of links containing hrefs to the current, next, and previous pages as applicable.",
            "items":{
                "type":"string"
            }
        },
        "invalidReferenceIds":{
            "type":"array",
            "description":"List of Invalid Reference IDs in request.",
            "items":{
                "type":"string"
            }
        },
        "invalidHugoNames":{
            "type":"array",
            "description":"List of Invalid Hugonames in request.",
            "items":{
                "type":"string"
            }
        },
        "invalidGeneNames":{
            "type":"array",
            "description":"List of Invalid Genenames in request.",
            "items":{
                "type":"string"
            }
        },
        "invalidAssemblies":{
            "type":"array",
            "description":"List of Invalid Assemblies in request.",
            "items":{
                "type":"string"
            }
        }
    },
    "description":"Model for paginated collections of data."
}

Nested Schema : invalidAssemblies

Type: array

List of Invalid Assemblies in request.

Show Source

Array of: string

{
    "type":"array",
    "description":"List of Invalid Assemblies in request.",
    "items":{
        "type":"string"
    }
}

Nested Schema : invalidGeneNames

Type: array

List of Invalid Genenames in request.

Show Source

Array of: string

{
    "type":"array",
    "description":"List of Invalid Genenames in request.",
    "items":{
        "type":"string"
    }
}

Nested Schema : invalidHugoNames

Type: array

List of Invalid Hugonames in request.

Show Source

Array of: string

{
    "type":"array",
    "description":"List of Invalid Hugonames in request.",
    "items":{
        "type":"string"
    }
}

Nested Schema : invalidReferenceIds

Type: array

List of Invalid Reference IDs in request.

Show Source

Array of: string

{
    "type":"array",
    "description":"List of Invalid Reference IDs in request.",
    "items":{
        "type":"string"
    }
}

Nested Schema : items

Type: array

A collection of paged items.

Show Source

Array of: object Serializable

{
    "type":"array",
    "xml":{
        "name":"items",
        "wrapped":true
    },
    "description":"A collection of paged items.",
    "items":{
        "$ref":"#/definitions/Serializable"
    }
}

Nested Schema : link

Type: array

A collection of links containing hrefs to the current, next, and previous pages as applicable.

Show Source

Array of: string

{
    "type":"array",
    "example":"{rel: 'next',href: '/patientapi/patients?limit=100&offset=300'}",
    "xml":{
        "name":"link",
        "wrapped":true
    },
    "description":"A collection of links containing hrefs to the current, next, and previous pages as applicable.",
    "items":{
        "type":"string"
    }
}

Example:

{rel: 'next',href: '/patientapi/patients?limit=100&offset=300'}

Nested Schema : Serializable

Type: object

400 Response

Invalid parameters supplied

404 Response

genomeAssembly ensemblVersions not found

Examples

The following example submits a GET request.

API URL

http://localhost:7010/ohfapi/cg/v3.3/genomeAssemblyRefVersions/byName?name=grch37&name=grch38

Example of Response Body

The following example shows the response returned in JSON format.

{
  "resourceType": "EnsemblVersions",
  "items": [
    {
      "identifier": {
        "system": "ODB",
        "value": "2"
      },
      "ensemblVersion": "GRCH37.75"
    },
    {
      "identifier": {
        "system": "ODB",
        "value": "21"
      },
      "ensemblVersion": "GRCH37.70"
    }
  ],
  "count": 2,
  "hasMore": false,
  "links": [
    {
      "rel": "self",
      "href": "http://localhost:7010/ohfapi/cg/v3.3/genomeAssemblyRefVersions/byName?name=grch37&name=grch38"
    }
  ],
  "invalidAssemblies": [
    "grch38"
  ]
}