2 Currently Active Working Groups / Committees
The following describe currently active working groups listed in alphabetical order. If you are interested in becoming involved with one of these groups please contact the group leader(s).
2.1 BiocAsia
- Description: This group will primarily be involved with conference planning for the BiocAsia conference and seeks to formalise this as a Bioconductor Working Group
- Slack: #biocasia-conference-organization, #biocasia
- Leads: Stevie Pederson, Stefano Mangiola
- Current Members: Stevie, Stefano, Ellis Patrick, Peter Hickey, Kozo Nishida, Jiya Chaudhary, Manoj Wagle, Lori Shepherd
2.2 BiocAwards
- Description: In 2020, Bioconductor established annual Bioconductor awards to recognize outstanding contributions to the Bioconductor community. This committee meets annually starting roughly 4-6 months before the annual conference to conduct nominations and voting.
- Links: https://bioconductor.org/about/awards/
- Leads: Lori Shepherd Lori.Shepherd@RoswellPark.org and Maria Doyle
- Current Members: Stevie Pederson, Johannes Rainer
2.3 Classes and Methods Recommendations
- Description: Discussions arounnd Bioconductor ‘official’ classes and methods and how to articulate their benefits to increase their usage across the ecosystem, in particular in new contributions. Contemplation of how to integrate S7 framework.
- Slack: #biocclasses
- Links: https://github.com/Bioconductor/BiocClassesWorkingGroup
- Leads: Laurent Gatto, Michael Lawrence, Lori Shepherd
- Current Members: Vince Carey, Laurent Gatto, Michael Lawrence, Marcel Ramos, Lluis Revilla, Dario Righelli, Lori Shepherd, Malte Thodberg, Tim Triche
2.4 Cloud Methods
- Description: The goal of this group is to develop standards and tools for the Bioconductor community that are related to the cloud.
- Slack: #cloud-working-group
- Leads: Erdal Cosgun
- Current Members: Mike Smith, Levi Waldron, Tyrone Lee, Marcel Ramos, Brian Schilder, Alex Mahmoud, Jen Wokaty, Ludwig Geistlinger, Sean Davis, Vince Carey
2.5 Code of Conduct
- Description: The Code of Conduct Committee reviews and revises the Bioconductor Code of Conduct as needed. There is also a large effort to translate the Code of Code to multiple languages.
- Links: https://github.com/Bioconductor/bioc_coc_multilingual
- Slack: private channel
- Leads: Anna Quaglieri, Gerry Tonkin-Hill
- Current Members: Kevin Rue-Albrecht, Martin Davila-Cervantes, Federica Gazzelloni, Michael Love, Federico Marini, Sowmya Parthiban, Shixiang Wang, Lluis Revilla, Paulina Boadiwaa Mensah, Peace Sandy, Sinmisoluwa Adesanya, Michella Savage
2.6 Conference Planning
- Description: Organizes and Plans the Annual Conference.
- Slack: #bioc-conference-organization, #bioc-conference-everyone
- Leads: Levi Waldron, Erica Feick
- Current Members: Charlotte Soneson, Jenny D, Jenny S, Lori, Marc, Andrew, Daniela, Matt, Mikhail, Samuel, Krithika, Sean, Wes
2.7 EDAM collaboration
- Description: This group unites EDAM and Bioconductor community members to explore indexing the Bioconductor ecosystem using the EDAM ontology. Our working group’s objectives include increasing the visibility of Bioconductor packages to a broader audience, including those not primarily using R, and expanding EDAM as a standard for annotating computational biology resources. Through this collaboration, we aim to synergize two large, international communities focused on open science. Future plans may include exploring connections with bio.tools, Bioschemas, and TeSS. If you’re interested in contributing or want to learn more, join us on Slack.
- Slack: #edam-collaboration
- Leads: Claire Rioualen, Maria Doyle, Hervé Pagès
- Current Members: Vince Carey, Hervé Menager, Lori Shepherd, Johannes Rainer, Kozo Nishida, Matúš Kalaš
2.8 Education
- Description: The Bioconductor teaching and education committee is a collaborative effort to consolidate Bioconductor-focused training material and establish a community of Bioconductor trainers. We define a curriculum and implement online lessons for beginner and more advanced R users who want to learn to analyse their data with Bioconductor packages.
- Links: https://github.com/bioconductor/bioconductor-teaching
- Slack: #education-and-training
- Leads: Laurent Gatto, Charlotte Soneson, Kevin Rue-Albrecht
- Founding Members: Laurent Gatto, Charlotte Soneson, Kevin Rue-Albrecht, Jenny Drnevich, Robert Castelo, Toby Hodges, Susan Holmes
- Current Members: Open to all. Join us! Details here.
2.9 Mass Spectrometry for Proteomics and Metabolomics
- Description: The goal of this working group is to identify members of the Bioconductor community that are interested and/or active in the area of mass spectrometry, proteomics and/or metabolomics and define technical needs or community expectations to prioritise future developments.
- Links: https://github.com/lgatto/BiocMassSpecWorkingGroup
- Slack: #mass-spectrometry, #metabolomics, #proteomics
- Leads: Laurent Gatto (TAB) and Johannes Rainer (CAB)
- Current Members: Lauent, Johannes.
2.10 Multilingual
- Description: The multiligual group is focused on translating and hosting Bioconductor material in multiple languages. Help is always appreciated!
- Slack: #documentation-translation
2.10.1 Code of Conduct Translation
- Links: CoC, talks_and_transcripts
- Leads: Leonardo Collado-Torres, Kozo Nishida, Daniela Cassol, Kevin Rue-Albrecht, Dario Righelli.
2.11 Package Build Report Triage
- Description: This committee would be responsible for reaching out to ERRORing package maintainers to fix their package and identify inactive packages for deprecation. While we have autonotificaiton of failure, many (most) maintainers ignore and are not good about checking the provided build reports. The core team has found that sending personalized emails greatly increases the likelihood of a maintainer to fix the package.
- Links: https://bioconductor.org/checkResults/
- Leads: Lori Shepherd Lori.Shepherd@RoswellPark.org
- Current Members: Johannes Rainer, Kayla Interdonato. I need more members! Please if interested please email or slack
2.12 R-Ladies and Bioc
- Description: The R-Ladies working group aims to foster collaboration between Bioconductor and R-Ladies to encourage, support, and promote gender minorities at the intersection of computational biology/bioinformatics and data science. We will achieve this through co-hosted events, blog posts, and other collaborative initiatives.
- Links:
- Slack: #r-ladies
- Leads: Janani Ravi
- Current Members: Janani Ravi, Daniela Cassol, Aedin Culhane, Lori Shepherd, Stephanie Hicks, Heather Turner
2.14 TeSS
- Description: This group focuses on enhancing the connectivity and integration between the TeSS (Training eSupport System) portal and the Bioconductor project. Our objectives include implementing Bioschemas for Bioconductor training material and events to improve their discoverability and accessibility via TeSS (https://tess.elixir-europe.org/content_providers/bioconductor). We aim to strengthen the bridge between these platforms, facilitating easier access to Bioconductor training resources.
- Slack: #elixir. A TeSS-specific channel may be created based on interest and participation.
- Leads: Maria Doyle
- Current Members: Maria Doyle, Laurent Gatto (contact Maria on Slack if interested to join this initiative)
2.15 Website
- Description: The Website working group will create the list of requirements for the Bioconductor website redesign.
- Links:
- Slack: #biocwebsite
- Leads: Maria Doyle, Lori Shepherd, Aedin Culhane
- Current Members: Kevin Rue-Albrecht, Sean Davis, Susan Holmes, Vince Carey, Alex Mahmoud, Marcel Ramos, Hédia Thani, Shila Ghazanfar, Laurent Gatto, Jen Wokaty, Samuel Gamboa, Bob Shear, Matt Ritchie
2.13 Social Media