UCSC Genomic Data

UCSC Genomic Data Hubs API

Track hub management

Documentation GitHub OpenAPI

Operations 2

GET /list/publicHubs List Public Hubs #

GET /list/hubGenomes List Hub Genomes #

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OpenAPI Specification

openapi: 3.2.0
info:
  title: UCSC Genome Browser REST Genomes Hubs API
  description: The UCSC Genome Browser REST API provides programmatic access to genomic data, sequences, annotation tracks, genome assemblies, and track hubs. All endpoints return JSON and require no authentication. Rate limiting of one request per second is recommended to avoid the botDelay system.
  version: 1.0.0
  contact:
    name: UCSC Genome Browser
    url: https://genome.ucsc.edu
servers:
- url: https://api.genome.ucsc.edu
  description: UCSC Primary API Server
- url: https://genome-euro.ucsc.edu/cgi-bin/hubApi
  description: UCSC Europe Mirror
- url: https://genome-asia.ucsc.edu/cgi-bin/hubApi
  description: UCSC Asia Mirror
tags:
- name: Hubs
  description: Track hub management
paths:
  /list/publicHubs:
    get:
      operationId: listPublicHubs
      summary: List Public Hubs
      description: Returns all publicly available track hubs registered with UCSC.
      tags:
      - Hubs
      responses:
        '200':
          description: List of public track hubs.
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/HubListResult'
  /list/hubGenomes:
    get:
      operationId: listHubGenomes
      summary: List Hub Genomes
      description: Returns the list of genomes available in a specific track hub.
      tags:
      - Hubs
      parameters:
      - name: hubUrl
        in: query
        required: true
        schema:
          type: string
          format: uri
        description: URL of the hub.txt file for the track hub.
      responses:
        '200':
          description: Genomes in the specified hub.
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/GenomeListResult'
components:
  schemas:
    GenomeAssembly:
      type: object
      properties:
        name:
          type: string
          description: Genome assembly identifier.
        organism:
          type: string
          description: Organism name.
        scientificName:
          type: string
          description: Scientific name of the organism.
        description:
          type: string
          description: Assembly description.
        sourceName:
          type: string
          description: Source name for the assembly.
        taxId:
          type: integer
          description: NCBI taxonomy identifier.
        orderKey:
          type: integer
        htmlPath:
          type: string
    GenomeListResult:
      type: object
      properties:
        ucscGenomes:
          type: object
          additionalProperties:
            $ref: '#/components/schemas/GenomeAssembly'
    HubListResult:
      type: object
      properties:
        publicHubs:
          type: array
          items:
            type: object
            properties:
              hubUrl:
                type: string
                format: uri
              shortLabel:
                type: string
              longLabel:
                type: string
              registrationTime:
                type: string
              dbCount:
                type: integer

UCSC Genomic Data Hubs API

Operations 2

Documentation

Specifications

Schemas & Data

Other Resources