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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 2021 include:

  • Complete Benchmarking Framework
  • Identify Test Datasets for Annotation Tools
  • Build a tool for assessing repertoire credibility

Members:

Co-Leaders: William Lees and Chaim Schramm

Members: Teyfik Agac, Lmar Babrak, Bryan Briney, Christian Busse, Brian Corrie, Patrice Duroux, Alex Horst, William Lees (Co-lead) Susanna Marquez, Patrick Meier, Enkelejda Miho, Eriberto Natali, Mats Ohlin, Chaim Schramm (Co-lead), Adrian Shepherd, Erand Smakaj, Inimary Toby, Deniz Tosoni, and Jian Ye.

Resources:

Compliance Checklist for AIRR Software Tools

AIRR Software WG – List of Tools Certified as Compliant

 

Contact: software@airrc.antibodysociety.org

AIRR Community News

Prof. Victor Greiff’s webinar is now available On Demand!

April 5, 2021 By Janice Reichert

In case you missed Prof. Victor Greiff’s very popular webcast on best practices relating to the conception, analysis and performance of adaptive immune receptor repertoire studies, the On Demand version is now online! High-throughput sequencing has enabled the capture of adaptive immune receptor repertoire (AIRR) data at unprecedented depth and precision. This webinar gives an […]

Interns looking for Integrated Immunology Projects

Interns looking for Integrated Immunology Projects

March 6, 2021 By jpburckert

The Friedrich Alexander University in Erlangen (Germany) is looking for PIs working in the AIRR-seq space to take on intern students. The internship should be a short scientific project spanning 8 weeks to 6 months. The application process starts in March and the internship is expected to start in October to December. You can read […]

AIRR-C WG/SC Calls

All times are in ET (Americas/New York)

Click here for full calendar view

BioRes WG - Call
10:00
Wed, April 14, 2021
OntoVoc WG - Call
13:00
Wed, April 14, 2021
Exec SC
11:00
Thu, April 15, 2021
Call - GLDB - Database
16:00
Tue, April 20, 2021
OntoVoc WG - Call
13:00
Wed, April 21, 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

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