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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.

09:00 EDT

West Training 1 Joint

11:30 EDT

12:15 EDT

West Training 2 Joint

14:45 EDT

15:30 EDT

West Training 3 Joint

18:00 EDT

Interregnum Joint

21:00 EDT

East Training 1 Joint

23:30 EDT

00:15 EDT

East Training 2 Joint

02:45 EDT

03:30 EDT

East Training 3 Joint

06:00 EDT

Interregnum Joint

09:00 EDT

West Training 4 Joint

11:30 EDT

12:15 EDT

West Training 5 Joint

14:45 EDT

15:30 EDT

West Training 6 Joint

18:00 EDT

Interregnum Joint

21:00 EDT

East Training 4 Joint

23:30 EDT

00:15 EDT

East Training 5 Joint

02:45 EDT

03:30 EDT

East Training 6 Joint

06:00 EDT

Interregnum Joint

10:00 EDT

BCC2020 Conference Day 1: West Joint

10:01 EDT

Welcome JointDave Clements • Nomi Harris

10:30 EDT

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

11:15 EDT

12:45 EDT

13:00 EDT

Broad Institute Data Sciences Platform Sponsor Table JointGeraldine Van der Auwera eLife Innovation Sponsor Table JointEmmy Tsang GigaScience Sponsor Table JointLaurie Goodman • Ken Cho • Scott Edmunds P1-03: : A somatic variant-calling pipeline for the support of molecular tumor boards at German university hospitals 🍐 JointWolfgang Maier • Patrick Metzger P1-07: : Automating the annotation of biological data through semantic technologies and machine learning 🍐 JointLorcán Pigott-Dix P1-08: : BioThings Explorer: A platform for distributed knowledge integration across biomedical APIs 🍐 JointJiwen Xin P1-10: : BLAST in a container 🍐 JointTom Madden P2-10: : Deploying Galaxy workflows in containers 🌀 JointBert Droesbeke P3-01: : Earth System Modelling and data analysis with Galaxy Climate Science Workbench 🌀 JointAnne Fouilloux P3-04: : Enabling computational workflows with Tripal and Galaxy 🌀 JointSean Buehler P3-09: : Exploring chromatogram library-based data independent acquisition analysis using EncyclopeDIA within Galaxy framework 🌀 JointPratik Jagtap P3-10: : Extensions of READemption for the analysis of several RNA-seq based protocols 🍐 JointTill Sauerwein P3-12: : Full-factorial examination of high-throughput microbiome sequencing workflows from sample preparation to bioinformatic analysis 🍐 JointTravis J. De Wolfe P4-06: : GraphClust2: a galaxy-based solution for clustering RNA sequences to discover conserved and common secondary structures 🌀 JointMilad Miladi P4-07: : GVL Demo: from Administrators to End-users 🌀 JointNuwan Goonasekera P5-04: : Magic-BLAST an accurate RNA-seq mapper 🍐 JointGrzegorz Boratyn P5-07: : Open-Source, Large-Scale Set Similarity Search with Sketch 🍐 JointDaniel Baker P5-10: : Planet Microbe: Toward the reintegration of oceanographic ‘omics dataset in their environmental and physiochemical context 🍐 JointAlise Jany Ponsero P5-12: : Progerin expression induces a significant downregulation of transcription from human repetitive sequences in iPSC-derived dopaminergic neurons 🌀 JointWalter Arancio P6-01: : pyGenomeTracks: Reproducible plots for multivariate genomic data sets 🍐 JointLucille Lopez-Delisle P6-02: : Reproducible, collaborative and exploratory data analysis using CyVerse VICE 🍐 JointReetu Tuteja P6-03: : Running and sharing the ENCODE atac-seq pipeline on Truwl 🍐 JointKarl Sebby P6-04: : SigBio-Shiny: A standalone interactive application for detecting biological significance on a set of genes 🍐 JointSangram Keshari Sahu P6-08: : Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED 🍐 JointSam Kovaka P6-12: : Towards more FAIR research software 🍐 JointMateusz Kuzak Poster / Demo West Session 1 Joint

13:45 EDT

15:00 EDT

Break! Joint Interregnum Joint

15:15 EDT

Birds of a Feather (BOFs) Joint BoF: Board games Social JointDelphine Lariviere BoF: IWC - Intergalactic Workflow Commission JointBrad Langhost BoF: Parenting during Coronavirus JointAssunta DeSanto BoF: Where is the bar? JointUla Afgan

17:00 EDT

Galaxy Social One! JointDave Clements

22:00 EDT

BCC2020 Conference Day 1: East Joint

22:01 EDT

Welcome JointNomi Harris • Gareth Price

22:30 EDT

East Keynote 1: Open minds bring open collaborations JointPrashanth N Suravajhala

23:15 EDT

00:45 EDT

01:00 EDT

eLife Innovation Sponsor Table JointEmmy Tsang GigaScience Sponsor Table JointKen Cho • Scott Edmunds • Laurie Goodman P1-01: : A composable rootless container system for genomic analysis pipelines 🍐 JointXu Yang P2-02: : Computational meta-analysis of transcriptome in Tetrology of Fallot reveals dysregulated hubs and pathways 🌀 JointSona Charles P2-07: : Data integration promises robust and faster discovery of COVID-19 drug targets 🍐 JointTyrone Chen P4-07: : GVL Demo: from Administrators to End-users 🌀 JointNuwan Goonasekera P6-01: : pyGenomeTracks: Reproducible plots for multivariate genomic data sets 🍐 JointLucille Lopez-Delisle P6-04: : SigBio-Shiny: A standalone interactive application for detecting biological significance on a set of genes 🍐 JointSangram Keshari Sahu P6-12: : Towards more FAIR research software 🍐 JointMateusz Kuzak Poster / Demo East Session 1 Joint

01:45 EDT

03:00 EDT

Break! Joint Interregnum Joint

03:15 EDT

Birds of a Feather (BOFs) Joint

05:00 EDT

Galaxy Social East! JointGareth Price

09:00 EDT

Birds of a Feather (BOFs) Joint BoF: A code of conduct for the OBF JointBastian Greshake Tzovaras • Malvika Sharan BoF: Celestial Masses: Galaxy for mass spectrometry-based research JointTim Griffin • Pratik Jagtap • Yves Vandenbrouck • Oliver Schilling BoF: Computational Immunoinformatics Worflows Over Galaxy Server JointAmbarish Kumar BoF: Galaxy Africa - Outreach Plans JointPeter van Heusden BoF: Galaxy-India: Launch and Outreach Plans JointAnshu Bhardwaj • Harpreet Singh

10:00 EDT

BCC2020 Conference Day 2: West Joint

10:01 EDT

Day 2 Welcome JointDave Clements • Morgan Taschuk

10:15 EDT

West Keynote 2: Open minds bring open collaborations JointPrashanth N Suravajhala

11:00 EDT

12:00 EDT

12:15 EDT

Sponsor Session West JointDave Clements

12:20 EDT

AWS Gold Sponsor Talk: Scalable genomics data analysis in the cloud JointLee Pang

12:40 EDT

Software Sustainability Institute Gold Sponsor Talk: Most code is cr#p and that’s okay JointNeil Chue Hong

13:00 EDT

eLife Innovation Sponsor Table JointEmmy Tsang GigaScience Sponsor Table JointKen Cho • Scott Edmunds • Laurie Goodman P1-05: : Automated generation of training materials from markdown documents 🌀 JointDelphine Lariviere P1-06: : Automated real-time data analysis and visualizations for the SARS-CoV-2/Covid19 portal 🌀 JointMarius van den Beek P1-09: : BioViz Connect: Web application linking CyVerse cloud resources to genomic visualization in the Integrated Genome Browser 🍐 JointNowlan Freese P1-12: : Codeathons as a tool for improving diversity in computer science 🍐 JointAllissa Dillman P2-01: : Community genome annotation integrates with Galaxy via Apollo providing greater integration and more functional annotation options 🌀 JointNathan Dunn P2-05: : CrowdGO: a wisdom of the crowd-based Gene Ontology prediction tool 🍐 JointMaarten Reijnders P3-03: : EDAM: the ontology of bioinformatics operations, topics, data, and formats (update 2020) 🍐 JointMatúš Kalaš P3-06: : eSPiGA: a population genomic analyses package with graphical interface 🍐 JointSebastian E. Ramos-Onsins P4-01: : Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Community Land Model in Galaxy 🌀 JointAnne Fouilloux • Hui Tang • Sonya Geange P4-05: : Goslin - A grammar of succinct lipid nomenclature 🍐 JointNils Hoffmann P4-09: : HiSCiAp and Human Cell Atlas Galaxy instance: User-friendly, scalable tools and workflows for single-cell analysis 🌀 JointPablo Moreno P4-11: : Implementation of the IEEE-2791-2020 standard (BioCompute Objects) in Galaxy via workflow invocations 🌀 JointCharles Hadley King P5-01: : Integrating refgenie and Galaxy for reference data management: a proposal for IDC 🌀 JointIgnacio Eguinoa P5-03: : Jasmine: Fast and accurate structural variant comparison across many individuals 🍐 JointMelanie Kirsche P5-08: : OpenBio.eu: An extrovert bioinformatics research object repository and workflow management system 🍐 JointAlexandros Kanterakis P5-09: : Pan-cancer Aberrant Pathway Activity Analysis (PAPAA): A Galaxy Operable Machine Learning-Based Pipeline. 🌀 JointVijay Krishna Nagampalli P6-06: : sRNAflow: a tool for analysis of small RNA-seq data 🍐 JointPawel Zayakin P6-10: : The cloud-native Galaxy: Galaxy on Kubernetes 🌀 JointNuwan Goonasekera • Enis Afgan • Alexandru Mahmoud P7-01: : ViPRA-Haplo: de novo reconstruction of viral populations using paired end sequencing data) 🍐 JointWeiling Li P7-03: : Visualization of gene regulation in endothelial cells that are programmed to human pluripotent stem cells and differentiated to endothelial or neuronal cells 🍐 JointLuke Trinity P7-07: Modern Data Visualization in Galaxy with Higlass 🌀 JointAlex Ostrovsky P7-09: Leveraging machine learning techniques and microbiota data for accessible and reproducible biological classification 🌀 JointJayadev Joshi Poster / Demo West Session 2 Joint

13:45 EDT

15:00 EDT

Break! Joint Interregnum Joint

15:15 EDT

Birds of a Feather (BOFs) Joint BoF: Computational Biology in the Cloud JointLydia Fleischmann • Yuriy Skripchenko

17:00 EDT

BOSC Happy Hour West! Joint

21:00 EDT

Birds of a Feather (BOFs) Joint BoF: Celestial Masses: Galaxy for mass spectrometry-based research JointPratik Jagtap BoF: Computational Immunoinformatics Worflows Over Galaxy Server JointAmbarish Kumar

22:00 EDT

BCC2020 Conference Day 2: East Joint

22:01 EDT

Day 2 East Welcome JointGareth Price

22:15 EDT

East Keynote 2: How Open Source has Changed the World JointLincoln Stein

23:00 EDT

00:00 EDT

00:15 EDT

Sponsor Session East JointGareth Price

00:20 EDT

AWS Gold Sponsor Talk: Scalable genomics data analysis in the cloud JointLee Pang

00:40 EDT

Software Sustainability Institute Gold Sponsor Talk: Most code is cr#p and that’s okay JointNeil Chue Hong

01:00 EDT

eLife Innovation Sponsor Table JointEmmy Tsang GigaScience Sponsor Table JointKen Cho • Scott Edmunds • Laurie Goodman P2-04: : CoxBase an online platform for epidemiological surveillance, visualization, analysis and typing of Coxiella burnetii genomic sequence 🍐 JointAkinyemi Mandela Fasemore P2-08: : Deep-EMSCAN: Deep Learning Approach to Recover Combination of Biologically Significant DNA Motifs 🍐 JointSonika Tyagi P3-03: : EDAM: the ontology of bioinformatics operations, topics, data, and formats (update 2020) 🍐 JointMatúš Kalaš P4-03: : Genome-wide variant analysis of dwarf soybean lines derived from normal F5 RILs obtained from crossing cultivated and wild soybean 🌀 JointNeha Roy P4-04: : Genpei: an implementation of GA4GH Workflow Execution Service Standard as a microservice 🍐 JointHirotaka Suetake P7-06: The comparative gene expression to delay flowering in the maturing mutation derived from the soybean crossing F8 RIL 🌀 JointChae Won Yu P7-07: Modern Data Visualization in Galaxy with Higlass 🌀 JointAlex Ostrovsky Poster / Demo East Session 2 Joint

01:45 EDT

03:00 EDT

Break! Joint Interregnum Joint

03:15 EDT

Birds of a Feather (BOFs) Joint BoF: Galaxy-India: Launch and Outreach Plans JointHarpreet Singh • Anshu Bhardwaj

09:00 EDT

Birds of a Feather (BOFs) Joint BoF: FAIR Computational Workflows JointIgnacio Eguinoa BoF: Galaxy and Kubernetes JointNuwan Goonasekera • Enis Afgan • Alexandru Mahmoud

10:00 EDT

BCC2020 Conference Day 3: West Joint

11:15 EDT

11:30 EDT

GigaScience Sponsor Table JointKen Cho • Scott Edmunds • Laurie Goodman P1-02: : A data model approach to data coordination in the Human Tumor Atlas Network project 🍐 JointXengie Doan P1-04: : An automated, accessible proteogenomic pipeline for high confidence detection and rigorous validation of novel peptide sequence variants in Galaxy-P 🌀 JointAndrew T Rajcewski P2-03: : COVID-19 PubSeq: Public SARS-CoV-2 Sequence Resource 🍐 JointAndrea Guarracino P2-06: : CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language 🍐 JointMichael Kotliar P2-09: : Democratizing DIA analysis on public cloud infrastructures via Galaxy 🌀 JointMatthias Fahrner P2-11: : Development of TranSMART and Applications in Biomedical Research 🍐 JointPeter Rice P2-12: : Dnpatterntools suite for nucleosome positioning sequence patterns 🌀 JointErinija Pranckeviciene P3-05: : EOSC-Nordic Climate Science Workbench roadmap 🌀 JointAnne Fouilloux P3-07: : Evaluating customized database generation methods for metaproteomics analysis within the Galaxy platform 🌀 JointSubina Mehta P3-08: : Evolution of the Nextflow workflow management system 🍐 JointEvan Floden P4-02: : Galaxy enables FAIR mass spectrometry imaging data analysis of urothelial carcinoma tissues 🌀 JointMelanie Föll P4-08: : H3AGWAS: Portable GWAS workflows for African science 🍐 JointBrandenburg Jean-Tristan P4-12: : In silico characterization of FK506-binding proteins in wheat 🌀 JointAnantika Suri P5-02: : Introducing App Store for IGB, a site for sharing and installing extensions for Integrated Genome Browser from BioViz.org 🍐 JointAnn Loraine P5-05: : Nebulizer: a command-line utility for remote Galaxy admin tasks 🌀 JointPeter Briggs P5-06: : New features for GRNsight: a web application for visualizing models of small- to medium-scale gene regulatory networks 🍐 JointKam D. Dahlquist P5-11: : Producing biodiversity indicators from citizen science projects: update of birds and bats monitoring schemes on Galaxy-E 🌀 JointColine Royaux P6-05: : SIMD Everywhere: portable implementations of SIMD intrinsics 🍐 JointEvan Nemerson P6-07: : Survey of metaproteomics software tools for functional microbiome analysis 🌀 JointRay Sajulga P6-09: : Testing and investigating deep learning models for promoter recognition 🍐 JointRaul Ivan Perez Martell P6-11: : The Xena Geneset Viewer provides a visual comparison of pathways over public genomic cancer data 🍐 JointNathan Dunn P7-02: : ViralMSA: massively scalable reference-guided multiple sequence alignment of viral genomes 🍐 JointNiema Moshiri P7-04: : What’s new with nf-core: community-built bioinformatics pipelines 🍐 JointPhil Ewels Poster / Demo West Session 3 Joint

12:15 EDT

12:30 EDT

Joint West Session 6: COVID-19 JointMorgan Taschuk

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

13:45 EDT

14:00 EDT

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

14:45 EDT

Closing remarks JointDave Clements • Nomi Harris • Peter Cock • Michael Heuer • Frederik Coppens

15:00 EDT

Interregnum Joint

15:15 EDT

Birds of a Feather (BOFs) Joint BoF: Dynamic Visualization of Bioinformatic Data JointNathan Dunn • Rob Buels • Colin Diesh BoF: Machine learning and parasites genomics diversity JointBoï Kone

21:00 EDT

Birds of a Feather (BOFs) Joint BoF: IWC - Intergalactic Workflow Commission JointBrad Langhost

22:00 EDT

BCC2020 Conference Day 3: East Joint

23:15 EDT

23:30 EDT

GigaScience Sponsor Table JointKen Cho • Scott Edmunds • Laurie Goodman P3-02: : ECRcentral: A central platform for early-career researchers 🍐 JointAziz Khan P3-11: : FASE: Finding Alternative Splicing Events and analysis of RNA-Sequencing Data. 🍐 JointHarsh Sharma P4-10: : Identification of differentially expressed genes between cultivar and weedy type in soybean plant 🌀 JointPrakash Basnet P7-04: : What’s new with nf-core: community-built bioinformatics pipelines 🍐 JointPhil Ewels P7-05: RNA-seq analyses of the hydrated and dehydrated leaves of the resurrection plant, Selaginella tamariscina 🌀 JointEunchae Kwon P7-08: Molecular Property Diagnostic Suite (MPDS): Development of Disease-Specific Web Portals Based on Galaxy Platform 🌀 JointAnamika Singh Gaur Poster / Demo East Session 3 Joint

00:15 EDT

00:30 EDT

Joint East Session 6: COVID-19 JointDieter Bulach

00:31 EDT

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

00:45 EDT

MALVIRUS: viral variant calling made easy 🍐 JointYuri Pirola

00:50 EDT

Development of TranSMART and Applications in Biomedical Research 🍐 JointPeter Rice

00:55 EDT

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

01:00 EDT

Q&A Joint

01:05 EDT

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

01:10 EDT

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

01:25 EDT

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

01:40 EDT

Q&A Joint

01:45 EDT

02:00 EDT

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

02:45 EDT

Closing JointGareth Price • Frederik Coppens • Peter Cock • Harpreet Singh • Nomi Harris

03:15 EDT

Birds of a Feather (BOFs) Joint BoF: Computational Chemistry JointChris Barnett BoF: Microbial Bioinformatics with Galaxy JointPeter van Heusden

04:15 EDT

CollaborationFest: Core Joint

01:00 EDT

CollaborationFest: Encore Joint

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