Cool-Seq-Tool 0.4.0-dev3#

The CoolSeqTool provides:

  • A Pythonic API on top of sequence data of interest to tertiary analysis tools, including mappings between gene names and transcripts, MANE transcript descriptions, and the Universal Transcript Archive

  • Augmented access to the SeqRepo database, including multiple additional methods and tools

  • Mapping tools that combine the above to support translation between various references sequences and annotation layers, and to MANE-designated transcripts

See the Installation and Usage pages for information on getting started. Individual classes and methods are documented within the API reference.

CoolSeqTool was created to support the Knowledgebase Integration Project of the Variant Interpretation for Cancer Consortium (VICC). It is developed primarily by the Wagner Lab. Full source code is available on GitHub.