Bioconductor community blog

Outreachy December 2024 Interns with Bioconductor

Outreachy

open science

Bioconductor participated in the Outreachy Internship program for the December 2024 to March 2025 cohort. Our interns share their experience working on their various projects and Bioconductor in general.

Kate Rasheed, Divine Aleru

Bioconductor Community Advisory Board

Bioconductor

CAB

An introduction to the new Co-Chair

Stevie Pederson

Bioconductor Carpentry: Celebrating Two Years of Global Training

education

Carpentries

As we complete two years of Instructor training, we reflect on our journey since becoming a member of The Carpentries in August 2022 (announcement). Our goal was to train 30…

Open Science Mentoring: My Journey with Outreachy Mentees

Outreachy

open science

Bioconductor has been participating in the Outreachy Internship program since 2022. In this post, I, Svetlana Ugarcina Perovic, a senior researcher in microbiome science…

Svetlana Ugarcina Perovic

2024 SpatialData Workshop

Bioconductor

R/Bioconductor developers participating in the 1st scverse SpatialData Workshop

Artür Manukyan

EuroBioC2024 conference recap

Bioconductor

Highlights from the 2024 Bioconductor European Conference in Oxford.

Announcing the First Galaxy and Bioconductor Community Conference (GBCC 2025)

Bioconductor

Join us at CSHL, New York, June 23-26!

Maria Doyle (Bioconductor), Natalie Whitaker-Allen (Galaxy)

Outreachy May 2024

Outreachy

open science

Bioconductor participated in the Outreachy Internship program for the May 2024 cohort. In this post, our intern shares her journey, detailing her experience working on the Microbiome Study Curation project and Bioconductor in general.

Scholastica Urua

BioC2024 conference recap

Bioconductor

Highlights from the 2024 Bioconductor North American Conference in Grand Rapids.

Beatriz Calvo-Serra: inaugural Bioconductor Athena Award winner

Bioconductor

Celebrating Bea’s contributions, resilience, and the inaugural Bioconductor Athena Award in her honor.

Robert Castelo, Maria Doyle, Aedin Culhane

Bioconductor highlights from the CZI Open Science Meeting

Bioconductor

CZI

Last month, members of the Bioconductor community attended the Chan Zuckerberg Initiative (CZI) Open Science Meeting in Boston. This meeting was for current CZI Open Science…

New R-Ladies–Bioconductor collaboration!

Bioconductor

RLadies

Announcing a new collaboration between R-Ladies and Bioconductor

Bioconductor projects funded by CZI EOSS Cycle 6

Bioconductor

CZI

Carpentries

Announcing the Bioconductor projects funded in the Chan Zuckerberg Initiative EOSS Cycle 6

Updated welcome message for the Bioconductor Community Slack workspace

Bioconductor

Welcome to the Bioconductor Community Slack Workspace! 🎉

Launching the New Bioconductor.org

Bioconductor

Website Redesign

A look into the final updates, community-driven improvements, and what’s next for our website.

Journey of Growth: Our Internship experience with Bioconductor

Outreachy

open science

Bioconductor participated in the Outreachy Internship program for the December 2023 cohort. Our interns share their experience working on their various projects and Bioconductor in general.

Chioma Onyido, Afuape Esther, Peace Sandy

Bioconductor is leaving Twitter/X

Bioconductor

We’re transitioning away from Twitter/X in favor of platforms more aligned with our Code of Conduct.

We had a blast at BioC2023! Here’s what happened.

Bioconductor

events

BioC2023 kicked off at the Dana-Farber Cancer Institute in Boston, USA. It was opened by Vincent Carey, Professor of Medicine at Harvard and co-founder of the Bioconductor…

Taking Bioconductor.org to the Next Level: Community, Collaboration and Progress

Bioconductor

Website Redesign

Discover the recent advancements in the Bioconductor.org website redesign project, including the survey’s user insights, UX audit, collaborative workshops, UX testing, and the build phase, all leading to an exciting sneak peek at BioC2023.

Our Journey as Outreachy Interns with Bioconductor

Outreachy

open science

Bioconductor participated in the Outreachy Internship program for the May 2023 cohort. Join us as we share our enriching experience working on various projects at Bioconductor and delve into the world of open science.

Sonali Kumari, Daena Rys, Atrayee Samanta

Testing Packages on Linux ARM64 with GitHub Actions

tech-notes

GitHub Actions

ARM64

How to use GitHub Actions to systematically build and test a Bioconductor package on Linux ARM64 architecture.

Reimagining Bioconductor.org: The Path to Our Website Redesign

Bioconductor

Website Redesign

Discover the journey of Bioconductor’s website redesign project. Learn about the process, from initial planning to collaboration with NearForm as we shape the future of Bioconductor.org.

Bioconductor’s Participation in Galaxy Smorgasbord 2023: A Recap

events

education

Bioconductor made its first appearance at the Galaxy Smorgasbord this year. This post provides a summary of our successful participation.

Maria Doyle, Alex Mahmoud

ELIXIR All Hands Meeting 2023

Bioconductor

Bioconductor’s participation in ELIXIR All Hands Meeting in Dublin, Ireland, June 2023.

Emulated build and test of Bioconductor packages for Linux ARM64

tech-notes

ARM64

Build and test for Linux ARM64 with Docker on x86_64 host

Martin Grigorov

Renaming the Default Branch to Devel

Bioconductor

During the 3.17 devel cycle, Bioconductor will rename the default branch devel.

Bioconductor Carpentries instructors Year 1

education

Carpentries

An update on the Bioconductor Carpentries global training program - applicants selected for Year 1

Introducing CuratedAtlasQueryR package

Package

CuratedAtlasQueryR is a new package that enables easy programmatic exploration of CELLxGENE single-cell human cell atlas data.

Maria Doyle, Stefano Mangiola

Our experience as Outreachy interns with Bioconductor

Outreachy

open science

Bioconductor participated in the Outreachy Internship program for the December 2022 cohort. Our interns share their experience working on their various projects and bioconductor in general.

Beryl Kanali, Atuhurira Kirabo

Bioconductor Hacktoberfest 2022 review and looking ahead to 2023

events

Last October, Bioconductor joined Hacktoberfest and got great community contributions there. Here, we describe its success and notify the community we plan to participate in 2023.

Maria Doyle, Kozo Nishida, Kevin Rue-Albrecht

Recommended Awesome Lists for Bioconductor Community: Oct 2022 Edition

education

This blog post consolidates web links to different Awesome Lists that may be useful to those just starting up in bioinformatics and those experienced in the field.

Bioconductor becomes a Carpentries member organization

education

Carpentries

Starting from August 1, 2022, Bioconductor will be a member of The Carpentries. Among other things, the membership enables us to allow 15 individuals to follow the Carpentries’ Instructor Training program and become certified Carpentries Instructors.

Charlotte Soneson, Laurent Gatto, Toby Hodges, Jenny Drnevich, Robert Castelo, Susan Holmes

Join the Bioconductor Community Advisory Board

BioC

CAB

Each year the Bioconductor Community Advisory Board (CAB) puts out a public call for new board members. This post tells you more about what the CAB does and how you can apply to become a member.

Kozo Nishida, Matt Ritchie

metaRbolomics hackathon to improve interoperability of metabolomics-related R packages

Metabolomics

Mass Spectrometry

Hackathon

Open Science

The 3rd metaRbolomics hackathon took place as a in-person workshop in Wittenberg (Germany) in November 2021. The aim was to improve interoperability of metabolomics/mass spectrometry-related R packages, combine development efforts and identify gaps and needs in current available functionality. It was a fun event with a lot of discussions and coding as well as socializing and networking.

Johannes Rainer

Celebrating 20 years of Bioconductor

events

The Bioconductor project started in 2001 and, during the Bioconductor conference 2021, celebrated 20 years of collaborative work for the development of open source and open development software.”.

Kevin Rue-Albrecht

BioC Asia 2021 は言語障壁の緩和に挑戦し、多様性を実現した

Japanese

BioC

Diversity

BioC Asia 2021 の運営委員会は Zoom や YouTube を用いて「英語のリアルタイムキャプションの追加」「英語キーノートスピーチの日本語翻訳キャプションの追加」「英語、日本語、中国語の3カ国語での並行ワークショップ」を行い、カンファレンスの多言語対応を実現しました。

BioC Asia 2021 challenged to overcoming language barriers and respected diversity

BioC

Diversity

BioC Asia 2021 organizing committee used Zoom and YouTube to “add real-time English captions”, “add Japanese translation captions for English keynote”, and “run 3 parallel workshops: English, Japanese, and Mandarin”.

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