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Documentation

The BiomolecularStructures package provides several Bioinformatics-related modules which can be used like this:

using BiomolecularStructures.<ModuleName>

e.g.

using BiomolecularStructures.Kabsch

Modules

The BiomolecularStructures package provides several Bioinformatics-related modules:

  • WebBLAST - A module to communicate with the NCBI/EBI BLAST servers.
  • Kabsch - Superimposing protein structures
  • PDB - Utility functions for parsing PDB files
  • Plot - Rudimentary plotting of matrices of atomic coordinates
  • Mafft - Julia API for multisequence alignment with MAFFT
  • Modeller - Functions and scripts to use MODELLER with Julia
  • Cluster -

Example pipeline

See src/pipeline.jl for a sketch of a pipeline that runs several of the package's modules.


A Bioinformatics WS 2014/15 course project by Simon Malischewski, Henning Schumann. Supervision by Prof. Dr. Daniel Hoffmann.