#Tag · bonfire.cafe

Incomplete characterization and inconsistent reporting of laboratory animal #genetics undermine study quality and limit research #reproducibility. This #PLOSBiology Perspective highlights the LAG-R guidelines and calls for collective action to enhance scientific integrity. https://plos.io/435uBTe

PLOS Biology

@PLOSBiology@fediscience.org · 9 hours ago

Christian Meesters and 1 other boosted

Digital Research Academy

@digiresacademy@mastodon.social · last week

Big goals need powerful voices and ours just hit TEDx! 🎤
Heidi Seibold, co-founder of Digital Research Academy, takes the stage at TEDxTUM 2025 to talk Open & Reproducible Science.
How do we rebuild trust, openness & collaboration in research? Find out Nov 8!

#OpenScience #Reproducibility #TEDx #ResearchCulture #TEDxTUM #OpenScience #Reproducibility #TrustInScience

Konrad Hinsen boosted

Miguel Colom

@mcolom@mastodon.social · 2 days ago

On Oct. 30 at 2 PM Paris time (or 1 PM GMT) I'll be making an introduction to reproducibility and computational sciences in the series of seminars of AREN (African Reproducibility Network). If you're interested, don't hesitate to join! https://us06web.zoom.us/meeting/register/2kUnopebSy-DcY--Jljq_g#/registration

#reproducibility #research #computing

Zoom

Welcome! You are invited to join a meeting: Promoting Reproducibility in the Computational Sciences: An Overview of Research Practices and Challenges. After registering, you will receive a confirmation email about joining the meeting.

This talk provides an overview of how reproducible research is implemented in computational sciences. It will clarify key concepts such as reproducibility, replicability, and repeatability within this field, and discuss the main challenges involved in producing and evaluating reproducible algorithms, as well as the best practices to address them. Finally, it will highlight several initiatives in France that aim to promote reproducibility in scientific research. These include Guix, which enables precise control of execution environments; Notebooks, which facilitate the execution of algorithms and the presentation of results; fully peer-reviewed, reproducible journals such as IPOL; Software Heritage, which ensures the perpetual archival of source code and provides reliable, intrinsic, and permanent identifiers; and MOOCs, which offer training opportunities, among others.

Miguel Colom

@mcolom@mastodon.social · 2 days ago

#reproducibility #research #computing

Zoom

Chris Hartgerink (they/them) boosted

Dorothy Bishop

@deevybee@mastodon.social · 4 days ago

New blogpost on eLife's new Replication study type https://deevybee.blogspot.com/2025/10/problems-with-elifes-new-article-type.html
tldr = I think it's doomed.
#publishing #reproducibility #publication bias

Problems with ELife's new article type: Replication studies

I was interested to receive an email from eLife last week, telling me that "As part of our commitment to open science, scientific rigour ...

Dorothy Bishop

@deevybee@mastodon.social · 4 days ago

Problems with ELife's new article type: Replication studies

I was interested to receive an email from eLife last week, telling me that "As part of our commitment to open science, scientific rigour ...

Digital Research Academy

@digiresacademy@mastodon.social · last week

#OpenScience #Reproducibility #TEDx #ResearchCulture #TEDxTUM #OpenScience #Reproducibility #TrustInScience

Jeremy ⁂ boosted

Lukas C. Bossert

@lukascbossert@mastodon.social · last week

Resilient technologies aren’t retro—they’re ROOT: Robust, Open, Ongoing, Time-tested. In RDM, text-first + small, composable tools beat opaque stacks. Emacs/Org(-babel) for literate workflows & provenance; Makefiles declare rebuilds; CLI atoms—curl, sed, awk, grep, diff, tar, rsync, cron, SQLite—keep steps inspectable, portable, rebuildable. DOI: https://doi.org/10.5281/zenodo.17157588 — Feedback welcome!

#ROOT #ResilientTech #Emacs
#OrgMode #RDM #NFDI
#FAIR
#Reproducibility
#literateprogramming
#BoostOK

Zenodo

Resilient Technologies. Why Decades-Old Tools Define the ROOT of Modern Research Data Management

Research data management (RDM) today is characterized by a multitude of new platforms and specialized software solutions. These innovations are undoubtedly important, but they also involve risks: short life cycles, proprietary dependencies, and limited sustainability. In contrast, there are tools that have existed for decades and have proven to be remarkably resilient. These “resilient technologies” are distinguished by longevity, openness, interoperability, and the support of active communities. Examples include Emacs (established in 1976 as a highly customizable editor), awk (1977) for efficient text and data processing, sed and grep (indispensable in pattern recognition and transformation since the 1970s), as well as perl (1987) as a flexible scripting language for data pipelines. In the field of documentation, LaTeX (1984) stands for sustainable, reproducible, and platform-independent text processing. For the automation of complex workflows, make (1976) has proven its worth, while rsync (1996) remains unrivaled as a robust tool for data backup and transfer to this day. This is complemented by curl (1997), which has enabled stable and universal data transfer over the internet for decades. This three-poster series argues that decades-old, community-maintained tools form the ROOT of sustainable research data management—Robust, Open, Ongoing, Time-tested. The Concept/Meta poster motivates the idea of “resilient technologies,” tracing its lineage from literate programming and the Unix philosophy to contemporary RDM/NFDI practice. It introduces the ROOT badge as a compact signal for tools that are transparent, composable, well-documented, and maintained across years. The Main poster translates the concept into practice by mapping resilient tools (e.g., Emacs/Org-babel, Make, curl/sed/awk/grep/diff, cron, tar/rsync, SQLite, LaTeX, find) onto the research data life cycle (planning, production, analysis, archiving, access, re-use). It highlights simple, inspectable patterns—small steps that chain together into pipelines you can audit, version, and rebuild long after fashions and GUIs change. The Source poster closes the loop by disclosing the full build of the posters themselves: a reproducible, text-first publication that can be re-generated from a single source using the very tools it advocates. Together, the trilogy provides a coherent “why–what–how”: a rationale for resilience, a concrete mapping to RDM tasks, and an executable artifact that embodies the approach. The intended outcome is pragmatic: lower maintenance burden, higher reproducibility, and infrastructures that improve with age.

“ROOT badge: Robust • Open • Ongoing • Time-tested.”

Billy Smith boosted

Digital Research Academy

@digiresacademy@mastodon.social · last week

Last call to level up your #Python skills!
Make your projects reproducible, shareable & long-lasting.
Join our interactive online workshop with Priyanka Ojha to learn:
Project structuring best practices
Managing deps with Pixi
Building & publishing on PyPI
📅 Mon, 27 Oct 2025 | 10:00–12:30 (Europe/Zurich)
🔗 https://events.digital-research.academy/event/115/
#OpenScience #Reproducibility #JuRSE #DigitalResearchAcademy

DRA event platform (Indico) (Indico)

Python Packaging

Do you want to learn more about Python Packaging? Join our workshop! Format: Interactive online workshop What to expect: Why packaging matters for reproducibility, versioning, and collaboration. How to structure Python projects with best practices. Managing dependencies and lockfiles with Pixi for consistent environments. Writing clear and complete metadata (pyproject.toml / pixi.toml). Building Python packages (source + wheel distributions).Publishing your projects to TestPyPI and PyPI*...

Digital Research Academy

@digiresacademy@mastodon.social · last week

DRA event platform (Indico) (Indico)

Python Packaging

Lukas C. Bossert

@lukascbossert@mastodon.social · last week

#ROOT #ResilientTech #Emacs
#OrgMode #RDM #NFDI
#FAIR
#Reproducibility
#literateprogramming
#BoostOK

Zenodo

Resilient Technologies. Why Decades-Old Tools Define the ROOT of Modern Research Data Management

Bonfire and 1 other boosted

Software Heritage

@swheritage@mstdn.social · 3 weeks ago

Stop treating #code like an afterthought: record, share & value it. A new article in @Nature from our team + experts: https://www.nature.com/articles/d41586-025-03196-0.epdf?sharing_token=9U-KYTzMM2bXKCgLlOoHYNRgN0jAjWel9jnR3ZoTv0MW2LwVr2vgJOuDxRcJQkWqFM8ZarwmcgeTVugD5NXrgDfbeQpkZALvHSVk7SWtL4dYvmE0XJI-7IB07nUYGK-l96_joKMxFZ-OXM_K68Ophz2eSFnWfxQSBI1w5UePxFo%3D
#Reproducibility #OpenSource #OpenScience

Software Heritage

@swheritage@mstdn.social · 3 weeks ago

Ulrike Hahn boosted

Pete Bachant

@petebachant@fediscience.org · 4 weeks ago

Don't be ashamed of "messy" code. If it works, it's good. Share it.

#OpenScience #reproducibility

Messy reproducible code is better than "clean" irreproducible code.

Pete Bachant

@petebachant@fediscience.org · 4 weeks ago

Don't be ashamed of "messy" code. If it works, it's good. Share it.

#OpenScience #reproducibility

vanecx 🇧🇪 boosted

Elen Le Foll 🇫🇷 🇬🇧 🇩🇪

@ElenLeFoll@fediscience.org · last month

This is a long shot, but here we go: in November 2024, I made this screenshot presumably from a YouTube video that I watched on #reproducibility or #OpenScience. Does anyone recognise it? I sadly did not make a note of the source... Thank you!

EDIT: Mystery solved! Thanks for boosting everyone and a huge thank you to @DieterLukas who worked out that this slide comes at 7:34 mins in this talk by R. McElreath: https://youtu.be/d8LqFO1dk-w! 🙏 (P.S: such a great talk - I highly recommend it!)

Slide entitled: Four Pillars of Research with a picture of ruin with four columns. The text reads:
Reproducible: Same investigation, repeatable inference - Result exists
Reliable: New investigation, expected result - Result generalizes or transports
Reasoned: Any investigation, justified inference - Result might be knowledge Respectable: Ethical & Open Do no harm & preserve rights of others to reach their own conclusions & humane working conditions
The caption reads: You can picture them there on the right — Slide entitled: Four Pillars of Research with a picture of ruin with four columns. The text reads: Reproducible: Same investigation, repeatable inference - Result exists Reliable: New investigation, expected result - Result generalizes or transports Reasoned: Any investigation, justified inference - Result might be knowledge Respectable: Ethical & Open Do no harm & preserve rights of others to reach their own conclusions & humane working conditions The caption reads: You can picture them there on the right