Language-Agnostic Reproducible Data Analysis Using Literate Programming
نویسندگان
چکیده
منابع مشابه
Language-Agnostic Reproducible Data Analysis Using Literate Programming
A modern biomedical research project can easily contain hundreds of analysis steps and lack of reproducibility of the analyses has been recognized as a severe issue. While thorough documentation enables reproducibility, the number of analysis programs used can be so large that in reality reproducibility cannot be easily achieved. Literate programming is an approach to present computer programs ...
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There is evidence to suggest that a surprising proportion of published experiments in science are difficult if not impossible to reproduce. The concepts of data sharing, leaving an audit trail and extensive documentation are fundamental to reproducible research, whether it is in the laboratory or as part of an analysis. In this work, we introduce a tool for documentation that aims to make analy...
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The past ten years have witnessed substantial improvements in programming methodology. This advance, carried out under the banner of “structured programming,” has led to programs that are more reliable and easier to comprehend; yet the results are not entirely satisfactory. My purpose in the present paper is to propose another motto that may be appropriate for the next decade, as we attempt to ...
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Knuth’s Literate Programming system allows an author to design and describe a program hierarchically according to the method of stepwise refinement. The result is source code, which can be read sequentially like a book, section after section. This helps when reading printed source code, but on screen source code is read rather selectively like an encyclopedia. There the programmer wants a syste...
متن کاملTowards Modern Literate Programming
Literate programming was invented by Donald Knuth as a technique for improved documentation of program understanding. It involves writing code and documentation in a single source document, ordered for comprehension by humans rather than computers. Despite its ability to produce software of higher quality and maintainability, the technique is not widely used. In this report, we present a compre...
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ژورنال
عنوان ژورنال: PLOS ONE
سال: 2016
ISSN: 1932-6203
DOI: 10.1371/journal.pone.0164023