Increasing workflow development speed and reproducibility with Vectools

Tyler Weirick; Raphael Müller; Shizuka Uchida

doi:10.12688/f1000research.16301.2

Increasing workflow development speed and reproducibility with Vectools

F1000Res. 2018 Sep 20:7:1499. doi: 10.12688/f1000research.16301.2. eCollection 2018.

Authors

Tyler Weirick^{1

2}, Raphael Müller^{2

3}, Shizuka Uchida^{1

2

4}

Affiliations

¹ Cardiovascular Innovation Institute, University of Louisville, Louisville, KY, 40202, USA.
² Institute of Cardiovascular Regeneration, Goethe University Frankfurt, Frankfurt am Main, Hessen, 60590, Germany.
³ Institute for Bioinformatics and Systems Biology, Justus Liebig University Giessen, Giessen, Hessen, 35392, Germany.
⁴ Institute of Molecular Cardiology, University of Louisville, Louisville, KY, 40202, USA.

Abstract

Despite advances in bioinformatics, custom scripts remain a source of difficulty, slowing workflow development and hampering reproducibility. Here, we introduce Vectools, a command-line tool-suite to reduce reliance on custom scripts and improve reproducibility by offering a wide range of common easy-to-use functions for table and vector manipulation. Vectools also offers a number of vector related functions to speed up workflow development, such as simple machine learning and common statistics functions.

Keywords: bioinformatics; matrix; reproducibility; spreadsheet; vector; workflow.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Computational Biology
Machine Learning
Reproducibility of Results
Software
Workflow*

Grants and funding

This study was supported by the start-up funding from the Mansbach Family, the Gheens Foundation and other generous supporters at the University of Louisville; University of Louisville 21st Century University Initiative on Big Data in Medicine (Z1762); and the Deutsche Forschungsgemeinschaft (SFB834 Z4).