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BCC2020

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➞ Registration closed July 15.

BCC2020 is online, global, and affordable. The meeting and training are now done, and the CoFest is under way.

The 2020 Bioinformatics Community Conference brings together the Bioinformatics Open Source Conference (BOSC) and the Galaxy Community Conference into a single event featuring training, a meeting, and a CollaborationFest. Events run from July 17 through July 25, and is held in both the eastern and western hemispheres.

10:30 EDT

West Keynote 1: How Open Source has Changed the World JointLincoln Stein

11:31 EDT

Cooperative bacteriophage genome annotation in the biologist-friendly Galaxy and Apollo platforms 🌀 GalaxyJolene Ramsey Digital Expression Explorer 2: a repository of 8 trillion uniformly processed RNA-seq reads and still counting 🍐 BOSCMark Ziemann

11:45 EDT

Community genome annotation integrates with Galaxy via Apollo providing greater integration and more functional annotation options 🌀 GalaxyNathan Dunn Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED 🍐 BOSCSam Kovaka

11:50 EDT

THAPBI PICT -- a metabarcoding analysis pipeline developed as a Phytophthora ITS1 Classification Tool 🍐 BOSCPeter Cock Computational chemistry analysis using Galaxy: Exploring antigen-antibody binding patterns for MUC1-AR20.5 🌀 GalaxyChris Barnett

12:00 EDT

A reproducible workflow for amplicon-based microbial community analysis using the drake R package 🍐 BOSCRodrigo Ortega-Polo

12:05 EDT

Q & A 🌀 GalaxyDelphine Lariviere

12:10 EDT

Streamlining accessibility and computability of large-scale genomic datasets with the NHGRI genome data science Analysis, Visualization, and Informatics Lab-Space (ANVIL) 🍐 BOSCMichael Schatz Integrating and analyzing genotype, phenotype, and environmental data through CartograTree and Tripal Galaxy 🌀 GalaxyIrene Cobo

12:20 EDT

Q&A for session B1a 🍐 BOSCChris Fields

12:25 EDT

Tripal: an example of successful open-source distributed team development 🍐 BOSCMargaret Staton Automated real-time data analysis and visualizations for the SARS-CoV-2/Covid19 portal 🌀 GalaxyMarius van den Beek

12:30 EDT

BioThings Explorer: A platform for distributed knowledge integration across biomedical APIs 🍐 BOSCJiwen Xin

12:35 EDT

Don’t worry about data management - use Cenzontle 🍐 BOSCAsis Hallab

12:40 EDT

Q & A 🌀 GalaxyDelphine Lariviere Q&A for session B1b 🍐 BOSCChris Fields

14:01 EDT

Automated generation of training materials from markdown documents 🌀 GalaxyDelphine Lariviere

14:15 EDT

Enhancing rigor and reproducibility in biomedical research 🍐 BOSCJaqueline J. Brito Integrating refgenie and Galaxy for reference data management: a proposal for IDC 🌀 GalaxyIgnacio Eguinoa

14:20 EDT

Galaxy and its Tool Shed on Python 3: conclusion of a long journey 🌀 GalaxyNicola Soranzo Secondary analysis of publicly available omics data across almost 3 million publications 🍐 BOSCNicholas Darci-Maher

14:25 EDT

Q & A 🌀 GalaxyJennifer Harrow Q&A 🍐 BOSC

14:30 EDT

CrowdGO: Gene Ontology prediction using a meta approach 🍐 BOSCMaarten Reijnders Implementation of the IEEE-2791-2020 standard (BioCompute Objects) in Galaxy via workflow invocations 🌀 GalaxyCharles Hadley King

14:35 EDT

Goslin - A grammar of succinct lipid nomenclature 🍐 BOSCNils Hoffmann Porting the rCASC workflow for scRNA-Seq data analysis to Galaxy and the Laniakea Galaxy on-demand system 🌀 Galaxypietro mandreoli

14:40 EDT

Executable Research Article (ERA): Enrich a research paper with code and data 🍐 BOSCEmmy Tsang Galaxy, Selenium, and End-to-end Testing 🌀 GalaxyOleg Zharkov

14:55 EDT

Q & A 🌀 GalaxyJennifer Harrow Q&A 🍐 BOSC

22:30 EDT

East Keynote 1: Open minds bring open collaborations JointPrashanth Suravajhala

23:31 EDT

Digital Expression Explorer 2: a repository of 8 trillion uniformly processed RNA-seq reads and still counting 🍐 BOSCMark Ziemann

23:50 EDT

Computational chemistry analysis using Galaxy: Exploring antigen-antibody binding patterns for MUC1-AR20.5 🌀 GalaxyChris Barnett

23:55 EDT

Please contribute to FASTQE so I don’t have to 🍐 BOSCAndrew Lonsdale

00:05 EDT

Q & A 🌀 GalaxyMaria Doyle SigBio-Shiny: A standalone interactive application for detecting biological significance on a set of genes 🍐 BOSCSangram Keshari Sahu

00:15 EDT

A comprehensive benchmarking of WGS-based structural variant callers 🍐 BOSCVaruni Sarwal

00:20 EDT

Q&A for session B1a 🍐 BOSCMoni Muñoz-Torres

00:25 EDT

Automated real-time data analysis and visualizations for the SARS-CoV-2/Covid19 portal 🌀 GalaxyMarius van den Beek

00:40 EDT

Q & A 🌀 GalaxyMaria Doyle

02:01 EDT

Bionitio: building better bioinformatics tools with batteries included 🍐 BOSCBernie Pope

02:20 EDT

Galaxy and its Tool Shed on Python 3: conclusion of a long journey 🌀 GalaxyNicola Soranzo

02:25 EDT

Q & A 🌀 GalaxySimon Gladman Q&A 🍐 BOSCHeather Wiencko

11:16 EDT

Building open source communities and empowering new contributors 🍐 BOSCYo Yehudi The cloud-native Galaxy: Galaxy on Kubernetes 🌀 GalaxyAlexandru Mahmoud

11:30 EDT

Codeathons as a tool for improving diversity in computer science 🍐 BOSCAllissa Dillman Custos: Enabling User Authentication via External Institutional Identities 🌀 GalaxyJuleen Graham

11:35 EDT

CyVerse Learning Institute’s foundational open science skills workshop 🍐 BOSCTyson Swetnam On-demand Galaxy with Laniakea: results and future perspectives 🌀 GalaxyMarco Antonio Tangaro

11:40 EDT

HiSCiAp and Human Cell Atlas Galaxy instance: User-friendly, scalable tools and workflows for single-cell analysis 🌀 GalaxyPablo Moreno Open Life Science: Empowering early career researchers to become open science leaders 🍐 BOSCBérénice Batut • Yo Yehudi • Malvika Sharan

11:55 EDT

Q & A 🌀 GalaxyJohn Chilton Q&A 🍐 BOSCYo Yehudi

14:01 EDT

Applying Pulsar: a democratised national and international remote compute network for Galaxy 🌀 GalaxyGianmauro Cuccuru Shesmu: A bioinformatics orchestration tool 🍐 BOSCAndre Masella

14:15 EDT

SIMD Everywhere: portable implementations of SIMD intrinsics 🍐 BOSCEvan Nemerson Galaxy Community Update 🌀 GalaxySimon Gladman • Gareth Price • Bjorn Gruning • Michael Schatz • Anton Nekrutenko • Jeremy Goecks • The Other Enis Afgan • Daniel Blankenberg

14:20 EDT

Biopython Project Update 2020 🍐 BOSCPeter Cock

14:25 EDT

Q&A for session B4a 🍐 BOSCKarsten Hokamp

14:30 EDT

Introducing App Store for IGB, a site for sharing and installing extensions for Integrated Genome Browser from BioViz.org 🍐 BOSCAnn Loraine

14:35 EDT

pyGenomeTracks: Reproducible plots for multivariate genomic data sets 🍐 BOSCLucille Delisle

14:40 EDT

MultiQC updates: Visualising results from common bioinformatics tools 🍐 BOSCPhil Ewels

14:45 EDT

The Xena Geneset Viewer provides a visual comparison of pathways over public genomic cancer data 🍐 BOSCNathan Dunn

14:50 EDT

New features for GRNsight: a web application for visualizing models of small- to medium-scale gene regulatory networks 🍐 BOSCKam D. Dahlquist Q & A 🌀 GalaxyPeter van Heusden

14:55 EDT

Q&A for session B4b 🍐 BOSCKarsten Hokamp

02:01 EDT

Applying Pulsar: a democratised national and international remote compute network for Galaxy 🌀 GalaxyGianmauro Cuccuru

02:15 EDT

Galaxy Community Update 🌀 GalaxySimon Gladman • Gareth Price • Michael Schatz • Bjorn Gruning • Anton Nekrutenko • Jeremy Goecks • The Other Enis Afgan • Daniel Blankenberg

02:35 EDT

pyGenomeTracks: Reproducible plots for multivariate genomic data sets 🍐 BOSCLucille Delisle

02:40 EDT

MultiQC updates: Visualising results from common bioinformatics tools 🍐 BOSCPhil Ewels

02:50 EDT

Q & A 🌀 GalaxyHarpreet Singh

02:55 EDT

Q&A for session B4b 🍐 BOSCHeather Wiencko

10:01 EDT

Evolution of the Nextflow workflow management system 🍐 BOSCEvan Floden

10:02 EDT

Producing biodiversity indicators from citizen science projects: update of birds and bats monitoring schemes on Galaxy-E 🌀 GalaxyColine Royaux

10:15 EDT

Essential biodiversity variables on Galaxy: implementing the PAMPA application 🌀 GalaxyColine Royaux What’s new with nf-core: community-built bioinformatics pipelines 🍐 BOSCPhil Ewels

10:20 EDT

H3AGWAS: Portable GWAS workflows for African science 🍐 BOSCBrandenburg Jean-Tristan VINYL: Variant prIoritizatioN bY survivaL analysis 🌀 GalaxyMatteo Chiara

10:25 EDT

Evaluating customized database generation methods for metaproteomics analysis within the Galaxy platform. 🌀 GalaxySubina Mehta Q&A 🍐 BOSCPeter Cock

10:30 EDT

An automated, accessible proteogenomic pipeline for high confidence detection and rigorous validation of novel peptide sequence variants in Galaxy-P 🌀 GalaxyAndrew T. Rajczewski CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language 🍐 BOSCMichael Kotliar

10:35 EDT

Q & A 🌀 GalaxyYvan Le Bras

10:40 EDT

Galaxy enables FAIR mass spectrometry imaging data analysis of urothelial carcinoma tissues 🌀 GalaxyMelanie Föll

10:45 EDT

Democratizing DIA analysis on public cloud infrastructures via Galaxy 🌀 GalaxyMatthias Fahrner

10:50 EDT

EOSC-Nordic Climate Science Workbench roadmap 🌀 GalaxyAnne Fouilloux

10:55 EDT

Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Community Land Model in Galaxy 🌀 GalaxyAnne Fouilloux • Hui Tang • Sonya Geange The all-new Genomics Virtual Lab 🍐 BOSCThe Other Enis Afgan

11:10 EDT

Q & A 🌀 GalaxyYvan Le Bras Q&A 🍐 BOSCPeter Cock

12:31 EDT

Serratus: Ultra-deep search for novel coronaviruses 🍐 JointArtem Babaian

12:45 EDT

MALVIRUS: viral variant calling made easy 🍐 JointYuri Pirola

12:50 EDT

Development of TranSMART and Applications in Biomedical Research 🍐 JointPeter Rice

12:55 EDT

ViPRA-Haplo: de novo reconstruction of viral populations using paired end sequencing data 🍐 JointWeiling Li

13:00 EDT

Q&A JointMorgan Taschuk

13:05 EDT

COVID-19 PubSeq: Public SARS-CoV-2 Sequence Resource 🍐 JointAndrea Guarracino

13:10 EDT

Designing and executing workflows for virtual screening of the SARS-CoV-2 main protease 🍐 JointSimon Bray

13:25 EDT

Analyzing the Nanopore data of SARS-CoV-2 within the Galaxy framework 🌀 JointNathan Roach

13:40 EDT

Q&A JointMorgan Taschuk

14:00 EDT

West Keynote 3: Biased by Default: Exploring Discrimination in Research Code JointAbigail Cabunoc Mayes

22:15 EDT

What’s new with nf-core: community-built bioinformatics pipelines 🍐 BOSCPhil Ewels

22:25 EDT

Evaluating customized database generation methods for metaproteomics analysis within the Galaxy platform. 🌀 GalaxySubina Mehta Q&A 🍐 BOSCChris Fields

22:30 EDT

An automated, accessible proteogenomic pipeline for high confidence detection and rigorous validation of novel peptide sequence variants in Galaxy-P 🌀 GalaxyAndrew T. Rajczewski

22:35 EDT

Q & A 🌀 GalaxyAnshu Bhardwaj

22:45 EDT

Challenges in implementing Janis: A generator for CWL and WDL pipelines 🍐 BOSCMichael Franklin

22:50 EDT

Rapidly creating portable pipelines with aCLImatise 🍐 BOSCMichael Milton

23:10 EDT

Q&A 🍐 BOSCChris Fields

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