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Truth, Proof, and Reproducibility: There’s No Counter-Attack for the Codeless
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Current concerns about reproducibility in many research communities can be traced back to a high value placed on empirical reproducibility of the physical details of scientific experiments and observations. For example, the detailed descriptions by 17th century scientist Robert Boyle of his vacuum pump experiments are often held to be the ideal of reproducibility as a cornerstone of scientific practice. Victoria Stodden has claimed that the computer is an analog for Boyle’s pump – another kind of scientific instrument that needs detailed descriptions of how it generates results. In the place of Boyle’s hand-written notes, we now expect code in open source programming languages to be available to enable others to reproduce and extend computational experiments. In this paper we show that there is another genealogy for reproducibility, starting at least from Euclid, in the production of proofs in mathematics. Proofs have a distinctive quality of being necessarily reproducible, and are the cornerstone of mathematical science. However, the task of the modern mathematical scientist has drifted from that of blackboard rhetorician, where the craft of proof reigned, to a scientific workflow that now more closely resembles that of an experimental scientist. So, what is proof in modern mathematics? And, if proof is unattainable in other fields, what is due scientific diligence in a computational experimental environment? How do we measure truth in the context of uncertainty? Adopting a manner of Lakatosian conversant conjecture between two mathematicians, we examine how proof informs our practice of computational statistical inquiry. We propose that a reorientation of mathematical science is necessary so that its reproducibility can be readily assessed.

Subject:
Mathematics
Social Science
Material Type:
Reading
Author:
Ben Marwick
Charles T. Gray
Date Added:
11/13/2020
code::proof: Prepare for most weather conditions
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Computational tools for data analysis are being released daily on repositories such as the Comprehensive R Archive Network. How we integrate these tools to solve a problem in research is increasingly complex and requiring frequent updates. In this manuscript we propose a toolchain walkthrough, an opinionated documentation of a scientific workflow. As a practical complement to our proof-based argument (Gray and Marwick, arXiv, 2019) for reproducible data analysis, here we focus on the practicality of setting up a research compendia with unit tests as a measure of code::proof, a reproducible research compendia that provides a measure of confidence in computational algorithms.

Subject:
Mathematics
Social Science
Material Type:
Reading
Author:
Charles T. Gray
Date Added:
11/13/2020