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Record W4313535113 · doi:10.1371/journal.pcbi.1010750

Ten simple rules for implementing open and reproducible research practices after attending a training course

2023· review· en· W4313535113 on OpenAlexaff
Verena Heise, Constance Holman, Hung Lo, Ekaterini Maria Lyras, Mark Christopher Adkins, Maria Raisa Jessica Aquino, Konstantinos I. Bougioukas, Katherine O. Bray, Martyna Gajos, Xuánzōng Guō, Corinna Hartling, Rodrigo Huerta-Gutiérrez, Miroslava Jindrová, Joanne Kenney, Adrianna P. Kępińska, Laura Kneller, Elena López-Rodríguez, Felix Mühlensiepen, Angela Richards, Gareth Richards, Maximilian Siebert, James Smith, Natalie Smith, Nicolai Stransky, Sirpa Tarvainen, Daniela S. Valdes, Kayleigh L. Warrington, Nina‐Maria Wilpert, Disa Witkowska, Mirela Zaneva, Jeanette Zanker, Tracey L. Weissgerber

Bibliographic record

VenuePLoS Computational Biology · 2023
Typereview
Languageen
FieldDecision Sciences
TopicScientific Computing and Data Management
Canadian institutionsYork University
FundersNIHR Oxford Biomedical Research CentreDeutsche ForschungsgemeinschaftKing's College LondonNational Institute for Health and Care ResearchWellcome TrustEconomic and Social Research CouncilNIHR Maudsley Biomedical Research CentreBerlin Institute of HealthSouth London and Maudsley NHS Foundation TrustWellcome
KeywordsGrassrootsBest practiceMedical educationProcess (computing)Computer scienceSimple (philosophy)Training (meteorology)Knowledge managementPsychologyMedicineManagementPolitical science

Abstract

fetched live from OpenAlex

Open, reproducible, and replicable research practices are a fundamental part of science. Training is often organized on a grassroots level, offered by early career researchers, for early career researchers. Buffet style courses that cover many topics can inspire participants to try new things; however, they can also be overwhelming. Participants who want to implement new practices may not know where to start once they return to their research team. We describe ten simple rules to guide participants of relevant training courses in implementing robust research practices in their own projects, once they return to their research group. This includes (1) prioritizing and planning which practices to implement, which involves obtaining support and convincing others involved in the research project of the added value of implementing new practices; (2) managing problems that arise during implementation; and (3) making reproducible research and open science practices an integral part of a future research career. We also outline strategies that course organizers can use to prepare participants for implementation and support them during this process.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.318
metaresearch head score (Gemma)0.299
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesMetaresearch, Open science
Consensus categoriesMetaresearch
DomainCandidate signal: Reproducibility · Consensus signal: none
Study designCandidate signal: Not applicable · Consensus signal: none
GenreCandidate signal: Methods · Consensus signal: Methods
Teacher disagreement score0.991
Threshold uncertainty score0.841

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.3180.299
Meta-epidemiology (narrow)0.0030.003
Meta-epidemiology (broad)0.0030.004
Bibliometrics0.0060.005
Science and technology studies0.0050.015
Scholarly communication0.0110.012
Open science0.0090.009
Research integrity0.0120.019
Insufficient payload (model declined to judge)0.0030.004

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.850
GPT teacher head0.649
Teacher spread0.201 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; the direct Gemma label and the distilled Codex classifier agree on what is shown here.

Study designNot applicable
DomainReproducibility
GenreMethods

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations16
Published2023
Admission routes1
Has abstractyes

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