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Related Concept Videos

Case Studies01:22

Case Studies

There are many research methods available to psychologists in their efforts to understand, describe, and explain behavior and the cognitive and biological processes that underlie it.
Regression Toward the Mean01:52

Regression Toward the Mean

Regression toward the mean (“RTM”) is a phenomenon in which extremely high or low values—for example, and individual’s blood pressure at a particular moment—appear closer to a group’s average upon remeasuring. Although this statistical peculiarity is the result of random error and chance, it has been problematic across various medical, scientific, financial and psychological applications. In particular, RTM, if not taken into account, can interfere when researchers try to extrapolate results...
Bioequivalence Experimental Study Designs: Repeated Measures, Cross-Over, Carry-Over, and Latin Square Designs01:15

Bioequivalence Experimental Study Designs: Repeated Measures, Cross-Over, Carry-Over, and Latin Square Designs

Bioequivalence experimental study designs play a pivotal role in testing the effectiveness of various treatments. Key among these are the repeated measures, cross-over, carry-over, and Latin square designs. In the repeated measures design, each subject receives all treatments, allowing for temporal comparisons. This type of design is useful in reducing variability but requires careful planning to avoid bias.The cross-over design, an economical method, involves sequential administration of...
Reliability and Validity01:29

Reliability and Validity

Reliability and validity are two important considerations that must be made with any type of data collection. Reliability refers to the ability to consistently produce a given result. In the context of psychological research, this would mean that any instruments or tools used to collect data do so in consistent, reproducible ways.
Naturalistic Observations02:30

Naturalistic Observations

If you want to understand how behavior occurs, one of the best ways to gain information is to simply observe the behavior in its natural context. However, people might change their behavior in unexpected ways if they know they are being observed. How do researchers obtain accurate information when people tend to hide their natural behavior? As an example, imagine that your professor asks everyone in your class to raise their hand if they always wash their hands after using the restroom. Chances...
Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches01:23

Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches

Biopharmaceutical studies constitute a vital field aiming to enhance drug delivery methods and refine therapeutic approaches, drawing upon diverse interdisciplinary knowledge. In research methodologies, the choice between controlled and non-controlled studies significantly influences the study's reliability and accuracy.
Non-controlled studies, commonly employed for initial exploration, lack a control group, rendering them susceptible to biases and external influences. In contrast, controlled...

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Case studies in reproducibility.

Torsten Hothorn1, Friedrich Leisch

  • 1Ludwig-Maximilians-Universität München, Germany. torsten.hothorn@stat.uni-muenchen.de

Briefings in Bioinformatics
|February 1, 2011
PubMed
Summary
This summary is machine-generated.

Researchers are making data available, but sharing software for reproducible research remains limited. This study surveyed 100 papers in Bioinformatics, finding a strong data sharing culture but less code availability for analyses.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Scientific Computing

Background:

  • Reproducible research is crucial for scientific integrity and validation.
  • Access to data and software alongside publications enhances research transparency.
  • Previous studies highlight varying levels of data and code sharing across disciplines.

Purpose of the Study:

  • To investigate the extent of data and software availability in published Bioinformatics research.
  • To assess the current culture of sharing resources for reproducible research.
  • To identify barriers and facilitators for sharing data and code.

Main Methods:

  • Survey of 100 papers published in the journal Bioinformatics.
  • Analysis of data sharing practices reported in the selected publications.
  • Assessment of source code availability for simulation studies and data analyses.

Main Results:

  • A strong culture of making research data available was observed among authors.
  • The availability of source code for simulation studies and data analyses is limited.
  • While data sharing is common, code sharing lags behind, impacting full reproducibility.

Conclusions:

  • Bioinformatics authors largely embrace data sharing, contributing to reproducible research.
  • Increased efforts are needed to promote the sharing of source code for analyses and simulations.
  • Enhancing software availability is key to achieving comprehensive reproducible research standards.