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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.

Rocio Dominguez Vidana

11:00 EDT

Pre-BCC Open House! West

09:01 EDT

Introduction to Galaxy Administration I Training CSergey Golitsynskiy • Martin Čech • Nate Coraor • Nicola Soranzo • Helena Rasche

12:16 EDT

From stars to constellations: Scaling analyses in Galaxy Training DMarius van den Beek • Saskia Hiltemann • Helena Rasche

15:31 EDT

Processing of Single Cell RNA-Seq Data with Galaxy Training EBjorn Gruning • Mehmet Tekman • Hans-Rudolf Hotz

21:01 EDT

Command Line Essentials for Bioinformaticians Training EIra Cooke • Wytamma Wirth • Jia Zhang • Legana Fingerhut

00:16 EDT

Produce a portable germline variant-calling pipeline in CWL and WDL using Janis and GATK I Training EMichael Franklin • Richard Lupat

09:01 EDT

Galaxy Code Architecture Training CJohn Chilton • Nate Coraor

12:16 EDT

Scripting Galaxy with BioBlend Training AMarius van den Beek • Dannon Baker • Nicola Soranzo

15:31 EDT

Introduction to Nextflow Training CEvan Floden • Paolo Di Tommaso • Kevin Sayers

21:01 EDT

Train the Galaxy Trainer Training CGareth Price • Maria Doyle • Simon Gladman

00:16 EDT

Produce a portable germline variant-calling pipeline in CWL and WDL using Janis and GATK II Training EMichael Franklin • Richard Lupat

10:01 EDT

Welcome JointDave Clements • Nomi Harris

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

12:00 EDT

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

12:10 EDT

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

12:25 EDT

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

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 P1-10: : 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 P4-06: : GraphClust2: a galaxy-based solution for clustering RNA sequences to discover conserved and common secondary structures 🌀 JointMilad Miladi P6-01: : pyGenomeTracks: Reproducible plots for multivariate genomic data sets 🍐 JointLucille Delisle P6-03: : Running and sharing the ENCODE atac-seq pipeline on Truwl 🍐 JointKarl Sebby

14:00 EDT

BOSC West Session 2: Reproducibility and standards 🍐 BOSCMoni Muñoz-Torres • Jessica Maia

14:01 EDT

Automated generation of training materials from markdown documents 🌀 GalaxyDelphine Lariviere Bionitio: building better bioinformatics tools with batteries included 🍐 BOSCBernie Pope

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

Secondary analysis of publicly available omics data across almost 3 million publications 🍐 BOSCNicholas Darci-Maher

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

14:40 EDT

Executable Research Article (ERA): Enrich a research paper with code and data 🍐 BOSCEmmy Tsang

15:15 EDT

BoF: Board games Social JointDelphine Lariviere

22:01 EDT

Welcome JointNomi Harris • Gareth Price

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

23:45 EDT

Community genome annotation integrates with Galaxy via Apollo providing greater integration and more functional annotation options 🌀 GalaxyNathan Dunn

00:10 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

00:15 EDT

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

09:00 EDT

BoF: Computational Immunoinformatics Worflows Over Galaxy Server JointAmbarish Kumar

10:15 EDT

West Keynote 2: Open minds bring open collaborations JointPrashanth Suravajhala

11:16 EDT

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

02:00 EDT

BOSC East Session 4a: Developer tools & libraries 🍐 BOSCHeather Wiencko Galaxy East Session 4: The big picture 🌀 GalaxyHarpreet Singh

02:01 EDT

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

02:20 EDT

Biopython Project Update 2020 🍐 BOSCPeter Cock

02:30 EDT

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

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

02:45 EDT

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

10:00 EDT

BOSC West Session 5: Workflow management systems 🍐 BOSCPeter Cock Galaxy West Session 5: Galaxy beyond genomics 🌀 GalaxyYvan Le Bras

10:01 EDT

Evolution of the Nextflow workflow management system 🍐 BOSCEvan Floden

10:15 EDT

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

10:25 EDT

Evaluating customized database generation methods for metaproteomics analysis within the Galaxy platform. 🌀 GalaxySubina Mehta

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

10:40 EDT

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

10:45 EDT

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

10:50 EDT

Rapidly creating portable pipelines with aCLImatise 🍐 BOSCMichael Milton

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 🍐 BOSCEnis Afgan

11:30 EDT

P1-02: : A data model approach to data coordination in the Human Tumor Atlas Network project 🍐 JointXengie Doan P2-06: : CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language 🍐 JointMichael Kotliar P3-08: : Evolution of the Nextflow workflow management system 🍐 JointEvan Floden P6-07: : Survey of metaproteomics software tools for functional microbiome analysis 🌀 JointRay Sajulga 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

12:31 EDT

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

22:00 EDT

BOSC East Session 5: Workflow management systems 🍐 BOSCChris Fields Galaxy East Session 5: Galaxy beyond genomics 🌀 GalaxyAnshu Bhardwaj

22:15 EDT

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

22:45 EDT

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

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