reference-sequence-fetcher’s documentation

reference-sequence-fetcher is a python client to retrieve sequence and metadata from reference servers in a user friendly and easy to use manner. It has requests library at its heart and allows you to fetch sequences using a Fetcher object.

An example would be like:

>>from reference_sequence_fetcher import fetcher
>>fethcer = Fetcher('yourserver.com')
>>fetcher.fetch_sequence('<checksum>')
>>ATGCATCGACTG.......ATGCATCGACTG

Fetcher object typically has two methods:

• fetch_info to fetch the service info of the server used in that particular Fetcher object
• fetch_sequence to fetch the sequence metadata
• fetch_metadata to fetch the metadata of the sequence

and three class methods info, sequenece and metadata

Note

reference-sequence-fetcher is stable only for Python3

• Installation
  • Installing from PyPi
  • Installing from Source
• Getting Started
  • Create a new Fetcher instance
  • Fetch service info
  • Fetch sequence data
  • Fetch metadata
• Retrieving sequences
  • Complete sequence query
  • Sub-sequence query
• API Documentation
• Examples
• Command Line Interface
  • To retrieve service-info
    • Examples
  • To retrieve a sequence
    • Examples
  • To retrieve a metadata
    • Examples
• Development Guide
  • Contributing to reference-sequence-fetcherdoc
    • Setting Up a Development Environment
    • Reporting a Bug
    • Contributing Documentation
    • Contributing Code
  • Testing

Report an Issue

Please direct all bug reports and feature requests to the project’s issue tracker on GitHub.

Indices and tables

• Index
• Module Index
• Search Page