Scispot

Scispot Sequences API

Biological sequence management for DNA, RNA, and protein sequences

GitHub OpenAPI

Operations 4

GET /sequences List Sequences #
POST /sequences Create Sequence #
GET /sequences/{sequenceId} Get Sequence #
PUT /sequences/{sequenceId} Update Sequence #

Documentation

📖
Documentation
https://docs.scispot.com/

Specifications

⚙
OpenAPI
https://raw.githubusercontent.com/api-evangelist/scispot/refs/heads/main/openapi/scispot-sequences-api-openapi.yml

Schemas & Data

📊
JSONSchema
https://raw.githubusercontent.com/api-evangelist/scispot/refs/heads/main/json-schema/scispot-labsheet-schema.json

Other Resources

🔗
DeveloperPortal
https://www.scispot.com/compbio
🔗
SpectralRules
https://raw.githubusercontent.com/api-evangelist/scispot/refs/heads/main/rules/scispot-rules.yml
🔗
JSONLDContext
https://raw.githubusercontent.com/api-evangelist/scispot/refs/heads/main/json-ld/scispot-context.jsonld
🔗
Vocabulary
https://raw.githubusercontent.com/api-evangelist/scispot/refs/heads/main/vocabulary/scispot-vocabulary.yml

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OpenAPI Specification

scispot-sequences-api-openapi.yml Raw ↑ 
openapi: 3.2.0
info:
  title: Scispot Sequences API
  description: The Scispot REST API provides programmatic access to all features of the Scispot laboratory data platform.
  version: 1.0.0
  contact:
    name: Scispot Developer Support
    url: https://docs.scispot.com/
  termsOfService: https://www.scispot.com/terms
servers:
- url: https://api.scispot.com/v1
  description: Scispot Production API
security:
- ApiKeyAuth: []
tags:
- name: Sequences
  description: Biological sequence management for DNA, RNA, and protein sequences
paths:
  /sequences:
    get:
      operationId: listSequences
      summary: List Sequences
      description: Retrieve a list of all biological sequences in the workspace. Sequences include DNA, RNA, and protein sequences with associated metadata, annotations, and links to experimental records.
      tags:
      - Sequences
      parameters:
      - name: type
        in: query
        description: Filter by sequence type
        required: false
        schema:
          type: string
          enum:
          - dna
          - rna
          - protein
          - chemical
      - name: page
        in: query
        description: Page number for pagination
        required: false
        schema:
          type: integer
          default: 1
      - name: limit
        in: query
        description: Number of sequences per page
        required: false
        schema:
          type: integer
          maximum: 100
          default: 20
      responses:
        '200':
          description: List of sequences
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/SequenceListResponse'
        '401':
          $ref: '#/components/responses/Unauthorized'
    post:
      operationId: createSequence
      summary: Create Sequence
      description: Add a new biological sequence to the workspace. Supports DNA, RNA, protein, and chemical structure sequences with full annotation support.
      tags:
      - Sequences
      requestBody:
        required: true
        content:
          application/json:
            schema:
              $ref: '#/components/schemas/SequenceInput'
      responses:
        '201':
          description: Sequence created successfully
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/Sequence'
        '400':
          $ref: '#/components/responses/BadRequest'
        '401':
          $ref: '#/components/responses/Unauthorized'
  /sequences/{sequenceId}:
    get:
      operationId: getSequence
      summary: Get Sequence
      description: Retrieve a single biological sequence by its unique identifier.
      tags:
      - Sequences
      parameters:
      - name: sequenceId
        in: path
        description: Unique identifier of the sequence
        required: true
        schema:
          type: string
      responses:
        '200':
          description: Sequence details
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/Sequence'
        '404':
          $ref: '#/components/responses/NotFound'
    put:
      operationId: updateSequence
      summary: Update Sequence
      description: Update an existing biological sequence record.
      tags:
      - Sequences
      parameters:
      - name: sequenceId
        in: path
        description: Unique identifier of the sequence
        required: true
        schema:
          type: string
      requestBody:
        required: true
        content:
          application/json:
            schema:
              $ref: '#/components/schemas/SequenceInput'
      responses:
        '200':
          description: Sequence updated
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/Sequence'
        '401':
          $ref: '#/components/responses/Unauthorized'
        '404':
          $ref: '#/components/responses/NotFound'
components:
  responses:
    Unauthorized:
      description: API key missing or invalid
      content:
        application/json:
          schema:
            $ref: '#/components/schemas/ErrorResponse'
    BadRequest:
      description: Invalid request parameters or body
      content:
        application/json:
          schema:
            $ref: '#/components/schemas/ErrorResponse'
    NotFound:
      description: Requested resource not found
      content:
        application/json:
          schema:
            $ref: '#/components/schemas/ErrorResponse'
  schemas:
    Sequence:
      type: object
      properties:
        id:
          type: string
          description: Unique sequence identifier
        name:
          type: string
          description: Sequence name or identifier
        type:
          type: string
          enum:
          - dna
          - rna
          - protein
          - chemical
          description: Sequence type
        sequence:
          type: string
          description: Raw sequence string
        length:
          type: integer
          description: Sequence length
        annotations:
          type: array
          description: Sequence annotations and features
          items:
            type: object
            properties:
              name:
                type: string
              start:
                type: integer
              end:
                type: integer
              type:
                type: string
              strand:
                type: string
                enum:
                - forward
                - reverse
        metadata:
          type: object
          description: Additional metadata
          additionalProperties: true
        createdAt:
          type: string
          format: date-time
        updatedAt:
          type: string
          format: date-time
    SequenceListResponse:
      type: object
      properties:
        data:
          type: array
          items:
            $ref: '#/components/schemas/Sequence'
        total:
          type: integer
        page:
          type: integer
        limit:
          type: integer
    SequenceInput:
      type: object
      properties:
        name:
          type: string
          description: Sequence name or identifier
        type:
          type: string
          enum:
          - dna
          - rna
          - protein
          - chemical
        sequence:
          type: string
          description: Raw sequence string
        annotations:
          type: array
          items:
            type: object
            properties:
              name:
                type: string
              start:
                type: integer
              end:
                type: integer
              type:
                type: string
        metadata:
          type: object
          additionalProperties: true
      required:
      - name
      - type
      - sequence
    ErrorResponse:
      type: object
      properties:
        error:
          type: string
          description: Error type
        message:
          type: string
          description: Human-readable error message
        code:
          type: integer
          description: Error code
  securitySchemes:
    ApiKeyAuth:
      type: apiKey
      in: header
      name: apiKey
      description: Personal API token generated from Scispot Account Settings > Personal Tokens. All API requests require this header.