"Explore the goals, progress, and plans of the Software Working Group focusing on encouraging better simulation, developing annotation tools, and assessing biological quality. Discover the latest achievements and upcoming objectives in this collaborative effort."
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Presentation Transcript
Software Working Group Teyfik Agac, Lmar Babrak, Bryan Briney, Christian Busse, Brian Corrie, Patrice Duroux, Alex Horst, Susanna Marquez, Patrick Meier, Enkelejda Miho, Eriberto Natali, Mats Ohlin, Adrian Shepherd, Erand Smakaj, Inimary Toby, Deniz Tosoni, Jian Ye Co-chairs: Chaim Schramm, William Lees
Goals for 2019/20: Encourage better simulation via summary statistics Finish the initial release of Sumrep and publish a paper applying it to selected datasets. 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.
Progress Sumrep Paper published in Frontiers: https://www.frontiersin.org/articles/10.3389/fimmu.2019.02533/full Software Tools Guidelines Guidelines and Checklist published: http://docs.airr- community.org/en/latest/swtools/airr_swtools_standard.html Submission process agreed at Genoa meeting Compliance badge agreed with AIRR-C Comms and Exec Annotation Tools Framework for comparing/identifying data sets nearly complete: collaboration with University of Applied Sciences and Arts Northwestern Switzerland (Enkelejda Miho s group) and other WG members
Plans for 2021 Complete the benchmarking framework Identify test datasets for annotation tools Build a tool for assessing repertoire credibility (needs a lead)
