bioutils – bioinformatics utilities and lookup tables

bioutils provides common utilities and lookup tables for bioinformatics.

  • bioutils.accessions – parse accessions, infer namespaces

  • bioutils.assemblies – Human assembly information (from NCBI/GRCh)

  • bioutils.cytobands – map cytobands to coordinates (from UCSC cytoband tables)

  • bioutils.digests – implementations of various digests

  • bioutils.normalize – allele normalization (left shuffle, right shuffle, expanded, vcf)

To use an E-Utilities API key run add it to an environment variable called ncbi_api_key and it will be used in the E-Utilities request.

Indices and tables