The CombineArchiveWeb application – A web based tool to handle files associated with modelling results
A peer-reviewed article of this Preprint also exists.
Author and article information
Abstract
Sharing in silico experiments is essential for the advance of research in computational biology. Consequently, the COMBINE archive was designed as a digital container format. It eases the management of files related to a modelling result, fosters collaboration, and ultimately enables the exchange of reproducible simulation studies. However, manual handling of COMBINE archives is tedious and error prone. We therefore developed the CombineArchiveWeb application to support scientists in promoting and publishing their research by means of creating, exploring, modifying, and sharing archives. All files are equipped with meta data and can be distributed over the Web through shareable workspaces.
Cite this as
2014. The CombineArchiveWeb application – A web based tool to handle files associated with modelling results. PeerJ PrePrints 2:e639v1 https://doi.org/10.7287/peerj.preprints.639v1note This preprint is not peer-reviewed. You may wish to reference the subsequent peer-reviewed version of this article.
Author comment
We developed the CombineArchive Toolkit. It consists of a core library, a desktop application, and a web based interface. Taken together, our tools support researchers in creating and exploring COMBINE archives.
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Competing Interests
The authors declare they have no competing interests.
Author Contributions
Martin Scharm conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.
Florian Wendland performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.
Martin Peters performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.
Markus Wolfien performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.
Tom Theile performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, reviewed drafts of the paper.
Dagmar Waltemath conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.
Funding
MS, MP, MW, and DW are funded by the German Federal Ministry of Education and Research (e:Bio program SEMS, FKZ 031 6194). TT is funded by the German Research Foundation (Training Group 1505/2 Welisa). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
