eLife: labs-posts

Executable Research Articles: a live session to explain a multifaceted experience

Mon, 13 Dec 2021 11:00:46 +0000

Watch the recording of eLife and Stencila live demo session at Open Publishing Fest on Executable Research Articles.

The story of Nextflow: Building a modern pipeline orchestrator

Thu, 14 Oct 2021 08:00:31 +0000

An in-depth insight, and learning opportunity, about the importance of data-driven computational pipelines for orchestrating scientific workflows.

tidyqpcr: quantitative PCR analysis in the tidyverse

Fri, 02 Jul 2021 09:30:00 +0000

Building on the ever-expanding tidyverse collection, a look into a new series of R scripts for qPCR analysis.

eLife authors relay their experiences with Executable Research Articles

Tue, 29 Jun 2021 13:50:00 +0000

Pioneering the new open publishing format, eLife authors share their feedback on what it’s like to enrich their papers through ERA.

eLife Innovation Sprint 2021: Applications are now open

Fri, 25 Jun 2021 10:30:00 +0000

We welcome applicants that want to make an impact on our selection of projects at our Sprint 2021 event.

Rebuilding foundations: Making Open Knowledge Maps future-proof

Fri, 11 Jun 2021 10:00:00 +0000

How the Open Knowledge Maps team tackled technical debt, while building the foundations for new promising features.

PREreview: Applying an equity lens to tool design and implementation

Tue, 08 Jun 2021 15:30:00 +0000

PREreview guides us through its Equity, Diversity and Inclusion journey to create best practices in knowledge evaluation in academia.

Innovation Sprint 2021: The iteration of good practices

Mon, 10 May 2021 15:00:00 +0000

Call for projects opens today for an online event on October 4th–5th.

Outbreak, a micropublishing journal for collaborative COVID-19 research

Tue, 20 Apr 2021 15:00:00 +0000

How flashpub.io crowdsources science for all researchers.

eLife Innovation Initiative: a community-driven approach promoting open-source innovation

Tue, 23 Mar 2021 16:00:00 +0000

We explain how we work with our community to bring open source to open science.

Open-source Community Call: Covid-19 open projects updates

Wed, 17 Mar 2021 16:30:00 +0000

Watch the recording of our discussion about the recent efforts by the open-source community to review and map preprints throughout the pandemic.

Announcing the next phase of Executable Research Articles

Mon, 01 Mar 2021 12:45:00 +0000

eLife and Stencila renew their partnership to make Executable Research Articles accessible to even more researchers and publishers.

ScienceBeam: Using open technology to extract knowledge from research PDFs

Fri, 04 Dec 2020 13:00:00 +0000

We report on our progress towards an open-source machine learning solution for the automatic extraction of semantically structured data from research PDFs.

Innovation Sprint 2020: Project roundup

Tue, 24 Nov 2020 11:12:36 +0000

We showcase the variety of projects developed during this year’s Innovation Sprint.

Welcome to a new ERA of reproducible publishing

Mon, 24 Aug 2020 09:01:44 +0000

New open-source technology lets eLife authors publish Executable Research Articles that treat live code and data as first-class citizens.

Python for the practicing neuroscientist: an online educational resource

Mon, 10 Aug 2020 12:00:00 +0000

Learn to analyze neural data using Python with this interactive, case study-based approach

Innovation Leaders 2020: A summary

Thu, 30 Jul 2020 12:30:31 +0000

We share some of the highlights, outcomes and learnings from our first open leadership and mentorship programme.

CoVis: a new tool to discover reliable COVID-19 research

Thu, 23 Jul 2020 12:33:59 +0000

CoVis is a community-driven resource to help scientists kick-start their COVID-19 research.

Making (neuro)science accessible world-wide: Online seminars for the globe

Tue, 26 May 2020 07:24:49 +0000

World Wide Neuro reconnects researchers and facilitates scientific discourse in the times of the pandemic.

neuromatch: Algorithms to match scientists

Mon, 18 May 2020 13:35:00 +0000

We developed machine-learning algorithms to help connect scientists during online research conferences.

eLife Innovation Sprint 2020: Accepted projects

Mon, 18 May 2020 12:55:20 +0000

We invite everyone passionate about transforming research communication and culture to join these 15 project teams in September.

SmartFigures Dashboard and Editor: tools for quick and easy research communication

Tue, 14 Apr 2020 14:47:24 +0000

An open tool stack for collaboratively authoring and sharing interoperable, discoverable scientific figures.

Innovation Sprint 2020: Design, test, learn, repeat

Mon, 30 Mar 2020 08:08:48 +0000

We reflected on the first two iterations of the eLife Innovation Sprint, and are ready to share our plans for the next.

Open-Source Community Call: the latest technology updates in open research communication

Wed, 04 Mar 2020 14:13:04 +0000

Innovators share the latest updates and opportunities in the open-source space for research communication and publishing.

Open Knowledge Maps: A visual interface to the world’s scientific knowledge

Wed, 26 Feb 2020 12:51:43 +0000

A software upgrade towards transforming research discovery into an open, collaborative process.

FAIR-biomed: On-demand research information

Mon, 27 Jan 2020 11:42:23 +0000

An open-source browser extension that delivers information from specialised databases directly to readers

Innovator Story: The search for better solutions

Tue, 21 Jan 2020 17:05:53 +0000

Junseon Yoo, the founder of Pluto, explores the challenges and opportunities for better intellectual collaboration through building Scinapse.

Innovation Leaders 2020: Introducing the cohort

Wed, 15 Jan 2020 14:16:05 +0000

We announce the participants and projects joining our new mentorship and open leadership training programme.

FORCE2019: Establishing a shared vision for preprints

Wed, 18 Dec 2019 10:40:04 +0000

Researchers, technologists, publishers and other stakeholders gathered to share visions and priorities for preprints in life science.

HPC4Africa: Open bioinformatics for Africa

Thu, 05 Dec 2019 09:05:10 +0000

Towards a blueprint for a High Performance Computing infrastructure for African bioinformatics research.

Innovation Leaders 2020: Meet our mentors and experts

Wed, 27 Nov 2019 08:55:01 +0000

We introduce the mentors and experts supporting our new mentorship and open leadership training programme.

Open-Source Community Call: AI and machine-learning technologies for open research

Thu, 07 Nov 2019 15:35:10 +0000

We share a recording of our discussion on the recent efforts and opportunities in applying cutting-edge technologies to research communication.

Introducing Innovation Leaders 2020

Fri, 25 Oct 2019 07:18:40 +0000

We invite you to join our mentorship programme designed for innovators in open science and research communication.

Innovation Sprint 2019: Project roundup

Thu, 10 Oct 2019 07:20:00 +0000

From web tools to drive forward research discovery, citation and evaluation, to literature curation and knowledge extraction, we showcase the projects developed at this year’s Innovation Sprint.

Innovator Story: Learning from errors

Wed, 02 Oct 2019 09:42:29 +0000

Michèle Nuijten shares her journey of creating Statcheck, a checker for statistical reporting inconsistencies.

Innovation Sprint: A podcast

Tue, 24 Sep 2019 12:07:54 +0000

A sneak peek of what happened at the eLife Innovation Sprint 2019.

PeerTax: Investigating the taxonomy of peer reviews

Fri, 06 Sep 2019 16:49:04 +0000

We describe a machine learning approach towards understanding the fundamental components of peer-review reports.

Innovator Story: Unlocking knowledge from PDFs

Thu, 15 Aug 2019 12:06:45 +0000

Patrice Lopez’s commitment to learning and contributing open-source led to the creation of a powerful, versatile tool for knowledge extraction and annotation.

Open-Source Community Call: Exploring tools for reproducible research

Mon, 15 Jul 2019 16:53:47 +0000

Community members share the latest efforts and opportunities in developing tools for conducting and communicating research.

Rebooting reproducibility: From re-execution to replication

Fri, 12 Jul 2019 11:05:25 +0000

Critical questions for building and employing more useful tools for reproducible research.

Reproducible Document Stack: Towards a scalable solution for reproducible articles

Wed, 22 May 2019 12:20:27 +0000

We announce our roadmap towards an open, scalable infrastructure for the publication of computationally reproducible articles.

Apply now for the eLife Innovation Sprint 2019

Thu, 02 May 2019 22:11:13 +0000

The second edition of the Innovation Sprint will take place September 4-5 in Cambridge, UK.

Innovator Story: Wrestling the Octopus

Wed, 24 Apr 2019 16:33:59 +0000

Alex Freeman describes how her love for storytelling propelled her from producing TV programmes to reinventing science publishing.

Libero Reviewer: The making of a user-friendly submission and peer-review platform

Fri, 12 Apr 2019 08:26:51 +0000

A review of the challenges and lessons learned in managing the development of Libero Reviewer.

JetFighter: Towards figure accuracy and accessibility

Thu, 04 Apr 2019 14:33:13 +0000

JetFighter screens preprints to improve data representation and colour-blind accessibility.

From our Sprint to your browser: An update on Plaudit

Sun, 17 Mar 2019 23:57:48 +0000

We present a new mechanism for the academic community to openly endorse publications.

Open-source technology in publishing: Explore the latest community updates

Wed, 06 Mar 2019 15:07:05 +0000

From online authoring, to a submissions wizard, annotations, endorsements for published research, reproducible manuscripts, screening figures for accessibility, and indexing data availability statements – February updates from the community call are now available.

Introducing eLife’s first computationally reproducible article

Wed, 20 Feb 2019 11:51:53 +0000

Blending the traditional manuscript with live code, data and interactive figures, we showcase a new way for researchers to tell their full story.

Community first: An evolution in the approach to open publishing infrastructure with Libero

Wed, 05 Dec 2018 12:30:00 +0000

Paul Shannon, Head of Technology, shares highlights from eLife’s journey in creating the Libero community.

Integrating Binder and Stencila – the building blocks to increased open communication and transparency

Mon, 19 Nov 2018 10:38:48 +0000

Find out how this new project can help researchers communicate their work openly, collaborate with other scientists and ensure the high quality and transparency of their workflow and findings.

Open-source technology in publishing: Community call, October 28

Wed, 14 Nov 2018 10:11:50 +0000

The recording of October’s community call on open-source technology for publishing is now available.

Evaluating ideas for eLife’s Innovation Initiative

Wed, 12 Sep 2018 09:14:18 +0000

We consider several questions before providing funding and mentorship for development of a new tool for open research communication.

WikiCiteVis — exploring citations on Wikipedia

Mon, 20 Aug 2018 17:42:12 +0000

Find out how scholarly articles are cited on Wikipedia with WikiCiteVis.

Gigantum – a simple way to create and share reproducible data science and research

Mon, 23 Jul 2018 14:06:30 +0000

Gigantum is an open data science platform that bundles fully versioned data, code and environment, letting anybody work locally but share globally with a single click.

Open-source technology in publishing: Community call, June 28

Wed, 18 Jul 2018 12:05:00 +0000

The recording of June’s community call on open source technology for publishing is now available.

Stencila – an office suite for reproducible research

Mon, 02 Jul 2018 13:53:59 +0000

Stencila launches the first version of its word processor and spreadsheet editor designed for researchers.

eLife Innovation Sprint 2018: Project roundup

Thu, 24 May 2018 14:32:38 +0000

From gamification of sample-size identification to a decentralised lab notebook, we showcase the projects developed at the eLife Innovation Sprint.

DOE CODE — sharing research software between national institutes

Thu, 19 Apr 2018 11:00:56 +0000

Jay Jay Billings describes the US Department of Energy's new open source software services and search platform.

Prototyping tools to improve the understanding of science

Tue, 27 Mar 2018 13:09:45 +0000

We challenged hackers to produce prototypes in 24 hours at Hack24 2018.

Investigating the context of citations

Tue, 20 Mar 2018 15:42:31 +0000

A report from a short project using natural language processing and machine learning on open-access content to understand what lies beneath a citation.

Open source in publishing: community call, February 22

Tue, 13 Mar 2018 11:04:36 +0000

The recording of February’s community call on open source technology for publishing is now available.

Enabling scientific discussion on eLife with Hypothesis

Wed, 31 Jan 2018 10:03:18 +0000

We collaborated with Hypothesis to integrate the open annotation tool on eLife.

Building a pattern library for scholarly publishing

Thu, 04 Jan 2018 16:04:17 +0000

How we implemented a front-end design system for the online journal.

How DIY communities are pushing the frontiers of science

Tue, 19 Dec 2017 12:17:31 +0000

Lucy Patterson reports back from Science Hack Day Berlin

Redesigning an online scientific journal from the article up III: design deliverables

Tue, 12 Dec 2017 11:13:53 +0000

Making our designs ready for use for the build phase of eLife 2.0.

Introducing Binder 2.0 — share your interactive research environment

Thu, 30 Nov 2017 11:18:54 +0000

The Project Jupyter team shares its reboot of Binder, the tool that allows researchers to make their GitHub repositories executable by others.

Author contributions: recognising researchers for the work they do

Tue, 21 Nov 2017 15:23:46 +0000

We are investigating ways to improve credit for researchers.

Fostering collaboration at MozFest

Thu, 09 Nov 2017 18:37:54 +0000

As Festival Lunch Partner, we facilitated activities and workshops on open science at MozFest 2017.

The running costs of eLife 2.0

Thu, 02 Nov 2017 12:07:13 +0000

Paul Shannon, Head of Technology, looks at the costs of running eLife’s own continuous publication platform four months after the launch of eLife 2.0.

A transparent record of life after publication

Tue, 31 Oct 2017 15:22:27 +0000

Showcasing Crossref Event Data and the importance of understanding what lies beneath the data.

PREreview — a new resource for the collaborative review of preprints

Wed, 25 Oct 2017 13:12:01 +0000

Reviewing preprints provides feedback to the authors and helps involve more scientists in peer review.

Data reusability: a pilot with goodtables

Mon, 23 Oct 2017 14:17:54 +0000

We worked with Open Knowledge International to investigate the reusability of data shared with eLife.

Reproducibility: automated.

Thu, 19 Oct 2017 13:52:56 +0000

Repurposing continuous integration tools for scientific analyses takes the headache out of reproducible research.

Reproducible Document Stack – supporting the next-generation research article

Thu, 07 Sep 2017 07:48:58 +0000

With Substance and Stencila, we are developing the technology required to publish computationally reproducible research articles online.

Designing Progressive Enhancement Into The Academic Manuscript

Tue, 05 Sep 2017 10:27:50 +0000

Considering a design strategy to accommodate interactive research articles.

Redesigning an online scientific journal from the article up II: User testing

Fri, 01 Sep 2017 09:38:00 +0000

How we validated our ideas using HTML prototypes and real users.

ReFigure – connecting scientific insights across the web

Wed, 23 Aug 2017 10:53:08 +0000

Introducing ReFigure, an open-source browser extension for linking, curating and sharing scientific insights across publishers.

Connecting biomedical knowledge through the Monarch Initiative

Tue, 15 Aug 2017 14:25:18 +0000

The Monarch Initiative integrates open life sciences and biomedical data to improve disease discovery and diagnostics.

ScienceBeam - using computer vision to extract PDF data

Fri, 04 Aug 2017 09:01:09 +0000

We outline a new project to convert PDF to XML with high accuracy by complementing existing tools with computer vision technology.

Texture - an open science manuscript editor

Mon, 24 Jul 2017 15:57:23 +0000

Substance invite the community to use and contribute to a new XML-first text editor.

Dynamically serving scientific images using IIIF

Thu, 13 Jul 2017 12:04:01 +0000

How we implemented the IIIF Image API to serve zoomable images at minimal cost.

ScienceFair - a new desktop science library

Thu, 29 Jun 2017 09:40:42 +0000

Richard Smith-Unna introduces ScienceFair, a new way to access and consume science from your desktop using peer-to-peer technology.

Redesigning an online scientific journal from the article up I: Early designs

Fri, 16 Jun 2017 12:34:52 +0000

Our approach to redesigning a better journal reading experience, starting with the Research Article.

Welcome to eLife 2.0

Wed, 31 May 2017 12:20:26 +0000

We’re moving the online journal forward, and we hope you’ll join us on our journey.

CoLab — instant messaging for scientists?

Thu, 25 May 2017 15:00:29 +0000

Winner of the eLife prize at Hack24 2017, CoLab is a proof-of-concept collaborative editing and messaging platform for scientists.

Composing reproducible manuscripts using R Markdown

Wed, 05 Apr 2017 09:06:43 +0000

Chris Hartgerink explains how and why he uses R Markdown to write dynamic research documents.

Hacking new tools for knowledge discovery

Mon, 27 Feb 2017 17:40:52 +0000

At Hack Cambridge Recurse, the eXplore, Knowledge Direct and SciChat projects piqued our interest.

Sharing macromolecule concepts online with Proteopedia

Wed, 29 Jun 2016 09:33:07 +0000

Scientists from the Weizmann Institute of Science, Israel, showcase the tool they developed to share macromolecules on the web.

Publishing scientific images using the IIIF

Mon, 16 May 2016 09:42:36 +0000

The International Image Interoperability Framework (IIIF) makes the world’s image repositories interoperable and accessible.

Toward publishing reproducible computation with Binder

Fri, 13 May 2016 16:25:00 +0000

Binder makes it easy to include an interactive version of your analysis, with the supporting data and code, alongside a published paper.

Writing scholarly documents with Manuscripts

Mon, 11 Jan 2016 16:53:04 +0000

Matias Piipari describes the tool he created to help researchers focus on the substance of their story when composing manuscripts.

Authoring online with Lens Writer

Fri, 04 Sep 2015 10:50:33 +0000

Following an experiment writing in Lens Writer, we explore why it's worth experimenting with online writing tools and what we hope to get out of it.