graph2tab, a library to convert experimental workflow graphs into tabular formats

Bioinformatics. 2012 Jun 15;28(12):1665-7. doi: 10.1093/bioinformatics/bts258. Epub 2012 May 3.

Abstract

Motivations: Spreadsheet-like tabular formats are ever more popular in the biomedical field as a mean for experimental reporting. The problem of converting the graph of an experimental workflow into a table-based representation occurs in many such formats and is not easy to solve.

Results: We describe graph2tab, a library that implements methods to realise such a conversion in a size-optimised way. Our solution is generic and can be adapted to specific cases of data exporters or data converters that need to be implemented.

Availability and implementation: The library source code and documentation are available at http://github.com/ISA-tools/graph2tab.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computational Biology / methods
  • Computer Graphics*
  • Databases, Factual
  • Oligonucleotide Array Sequence Analysis
  • Programming Languages*
  • Workflow*