The Antibody Society

the official website of the antibody society

The Adaptive Immune Receptor Repertoire Community of The Antibody Society

  • LOG IN
  • BECOME A MEMBER
  • About
    • Mission & Activities
    • Board of Directors
    • Staff & Volunteers
    • The Antibody Society’s Standing Committees
      • Communication & Membership Committee
      • Finance & Audit Committee
      • Initiatives Committee
      • Meetings Committee
    • Advisors
    • Sponsors
    • James S. Huston Antibody Science Talent Award
      • JSH Award Criteria
  • Society meetings
    • Antibody Engineering & Therapeutics (US) 2020
      • 2019 Antibody Engineering & Therapeutics
      • 2018 Antibody Engineering & Therapeutics
      • Meeting reports
      • Keynote presentations
      • What is INN a Name?
        • INN issue updates
    • Antibody Engineering & Therapeutics Europe 2020
      • Antibody Engineering & Therapeutics Europe 2019
    • AIRR Community Meetings
    • FOCIS Symposia
    • Society-Funded Meetings
  • AIRR Community
    • AIRR News
    • AIRR Publications
    • AIRR Meetings
      • AIRR Community Meeting VI: “Exploring New Frontiers”
      • AIRR Community Meeting V: “Zooming in to the AIRR Community”
      • AIRR Community Meeting V Pre-Meetings
        • AIRR-seq in the Pandemic
        • AIRR-seq Biological Standards and Workflows
      • AIRR Community Special Event: “Response to COVID-19”
      • AIRR Community Meeting IV: “Bridging the Gaps”
      • AIRR Community Meeting III
        • Day 1
        • Day 2
        • Day 3
        • Day 4
      • AIRR Community Meeting II
      • AIRR Community Meeting I
    • AIRR Community Working Groups
      • Biological Resources Working Group
      • Common Repository Working Group
      • Data Representation Working Group
      • Diagnostics Working Group
      • Germline Database Working Group
      • Legal and Ethics Working Group
      • Minimal Standards Working Group
      • Software Working Group
    • AIRR Community Sub-committees
      • Communications Sub-committee
      • Executive Sub-committee
      • Inferred Allele Review Committee
      • Meetings Sub-committee
    • AIRR Community Calendar
    • AIRR Community Resources
  • Members only
    • Login
    • Note to members
    • Antibodies in early-stage studies
    • Antibodies in late-stage studies
    • Presentations
  • Upcoming meetings
  • Web Resources
    • Society Publications
    • Antibody News You Should Know
    • Antibody therapeutics approved or in regulatory review in the EU or US
    • Research Resources
    • Education Resources
  • Career Center
  • Learning Center
    • Upcoming Webinars
    • Antibody Discovery & Development
    • Antibodies to Watch
    • Antibody Validation
  • COVID-19
    • Guide to “Coronavirus in the Crosshairs”
    • COVID-19 Biologics Tracker
    • Meeting Report: The Diagnostic Landscape for COVID-19
You are here: Home / The AIRR Community / AIRR Community Working Groups / Software Working Group

Software Working Group

Purpose:

To make it easy to do rigorous analysis of AIRR-seq data.

The purpose of our working group is to encourage practices that enable software tools to work, and to work with one another. A key first priority is to assemble data sets that people can use to test and compare the functionality of various programs. To progress this, we have defined summary statistics that can be used to characterize simulated data sets and compare them to real-world data sets. The result is a software tool, Sumrep, which is described in a recent paper.  We will use this tool to assist in the collection of simulated and real-world data sets for testing and benchmarking.

We have also defined a standard for AIRR-Seq software tools. We will promote this over the next year, as a way of encouraging inter-operation and adoption of AIRR standard protocols by providing community support and publicity to compliant tools. We have also started work (in collaboration with the Germline Database Working Group) on an initiative to assess the biological credibility of an AIRR-Seq repertoire, and to identify common technical errors that can occur during its preparation, which can be heard to spot from read quality annotations and other technical measures commonly available today.

Goals:

Plans for 2019/2020 include:

  • Encourage better simulation via summary statistics
    – Finish the initial release of Sumrep and publish a paper applying it to selected datasets. Now complete.
  • Evaluate annotation tools, using simulated and real-world data
    – Identify simulated and real-world datasets that are useful for evaluation.
    – Develop a framework for the comparison of results.
  • Encourage standard interchange formats
    – Encourage tool providers to submit their tools for review against the guidelines. Promote by issuing a ‘badge’ that providers can use to confirm compatibility.
  • A tool to assess biological quality/credibility of a repertoire – with GLDB WG
    – Assess genome usage/coverage
    – Hybridisation (existing work in GLDB WG)
    – Identify other common technical errors

Members:

Co-Leaders: William Lees and Chaim Schramm

Members: Bryan Briney, Christian Busse, Brian Corrie, Azahara Fuentes Trillo, Susanna Marquez, Eric Matsen, Enkelejda Miho, Pejvak Moghimi, Nima Nouri, Mats Ohlin, Branden Olson, Adrian Shepherd, Mikhail Shugay, and Jason Vander Heiden

Resources:

 

 

Contact: software@airrc.antibodysociety.org

AIRR Community News

Successful AIRR Community Meeting V

January 15, 2021 By Pam Borghardt

The fifth AIRR Community meeting (#AIRRC5) was held virtually Dec 8–10, 2020. The theme of this meeting was “Zooming in to the AIRR Community” connecting the global AIRR research community despite the pandemic for a series of Working Group & Sub-committee presentations, scientific sessions, interactive poster sessions, software tool demonstrations and networking events. AIRR Community […]

AIRR Community and PrecisionFDA COVID-19 Precision Immunology App-a-thon

December 28, 2020 By Pam Borghardt

The AIRR Community is helping to lead the PrecisionFDA COVID-19 Precision Immunology App-a-thon.   This is part of the “precisionFDA Challenges” program, which is designed to engage and improve software that analyzes NGS (next generation sequencing data) through community challenges. There were 68 bioinformaticians pre-registered for the Precision Immunology Challenge, and more are expected to join […]

AIRR-C WG/SC Calls

All times are in ET (Americas/New York)

Click here for full calendar view

ComRepo WG - Call
10:00
Thu, January 28, 2021
Meetings SC
10:30
Tue, February 2, 2021
BioRes WG - Call
10:00
Wed, February 3, 2021
Standards WG - Call
14:00
Mon, February 8, 2021
Exec SC w. Co-leads
11:00
Tue, February 16, 2021

Recent AIRR Publications

  • Christley et al. “The ADC API: a web API for the programmatic query of the AIRR Data Commons” (Frontiers in Big Data, 2020)
  • Lees et al. “OGRDB: a reference database of inferred immune receptor genes” (Nucleic Acids Research, 2020).

 
See all publications

Archives

Follow Us Online

  • Email
  • LinkedIn
  • Twitter
  • YouTube
  • Slack
  • Home
  • Privacy & Terms of Use
  • About
  • Board of Directors
  • Advisors
  • Sponsors
  • Mission & Activities
  • Join the Society
  • Membership Levels
  • Members only
  • Login
  • Antibody therapeutics approved or in regulatory review in the EU or US
  • Meeting reports
  • Presentations
  • Contact

©2015 - scicomvisuals