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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.

avatar for Erinija Pranckeviciene

Erinija Pranckeviciene

Vilnius University
Friday, July 17
 

09:01 EDT

Introduction to Galaxy Administration I Training CThat Other Person • Martin Čech • Nate Coraor • Nicola Soranzo • Helena Rasche

12:16 EDT

Introduction to Galaxy Administration II Training CThat Other Person • Martin Čech • Nate Coraor • Nicola Soranzo

15:31 EDT

Introduction to Galaxy Administration III Training BThat Other Person • Martin Čech • Nate Coraor
 
Saturday, July 18
 

03:31 EDT

Introduction to Galaxy Administration III Training DSimon Gladman • Kiran K Telukunta • Nicholas Rhodes • Catherine Bromhead

09:01 EDT

How to write a JBrowse 2 plugin Training DColin Diesh • Garrett Stevens

12:16 EDT

Embedding JBrowse 2 in your website Training CColin Diesh • Garrett Stevens

15:31 EDT

Fit your tools into any platform with Bioconda and BioContainers Training AAndrea Giachetti • Loraine Guéguen • Vincenzo Laveglia • Yi Sun
 
Sunday, July 19
 

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

Break! Joint

11:30 EDT

BOSC West Session 1a: Sequencing & analysis 🍐 BOSCChris Fields

11:31 EDT

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

11:50 EDT

THAPBI PICT -- a metabarcoding analysis pipeline developed as a Phytophthora ITS1 Classification Tool 🍐 BOSCPeter Cock

11:55 EDT

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

12:05 EDT

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

12:10 EDT

Integrating and analyzing genotype, phenotype, and environmental data through CartograTree and Tripal Galaxy 🌀 GalaxyIrene Cobo

12:15 EDT

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

12:24 EDT

BOSC West Session 1b: Open data 🍐 BOSCChris Fields

12:25 EDT

Tripal: an example of successful open-source distributed team development 🍐 BOSCMargaret Staton

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

12:45 EDT

Break! Joint

13:00 EDT

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 P3-04: : 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 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 P5-07: : 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 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

Galaxy West Session 2: Extending the Galaxy ecosystem 🌀 GalaxyJennifer Harrow

14:01 EDT

Automated generation of training materials from markdown documents 🌀 GalaxyDelphine Lariviere

14:15 EDT

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

14:30 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 Galaxy, Selenium, and End-to-end Testing 🌀 GalaxyOleg Zharkov
 
Monday, July 20
 

10:15 EDT

West Keynote 2: Open minds bring open collaborations JointPrashanth Suravajhala

11:15 EDT

Galaxy West Session 3: Galaxy Administration 🌀 GalaxyJohn Chilton

11:16 EDT

The cloud-native Galaxy: Galaxy on Kubernetes 🌀 GalaxyAlexandru Mahmoud

11:30 EDT

Codeathons as a tool for improving diversity in computer science 🍐 BOSCAllissa Dillman

11:35 EDT

CyVerse Learning Institute’s foundational open science skills workshop 🍐 BOSCTyson Swetnam

11:40 EDT

HiSCiAp and Human Cell Atlas Galaxy instance: User-friendly, scalable tools and workflows for single-cell analysis 🌀 GalaxyPablo Moreno

13:00 EDT

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 Kalas P3-06: : eSPiGA: a population genomic analyses package with graphical interface 🍐 JointSebastian E. Ramos-Onsins 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 P5-08: : OpenBio.eu: An extrovert bioinformatics research object repository and workflow management system 🍐 JointAlexandros Kanterakis P6-10: : The cloud-native Galaxy: Galaxy on Kubernetes 🌀 JointNuwan Goonasekera • The Other Enis Afgan • Alexandru Mahmoud P7-07: Modern Data Visualization in Galaxy with Higlass 🌀 JointAlex Ostrovsky

14:01 EDT

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

14:15 EDT

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

14:30 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
 
Tuesday, July 21
 

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

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

10:20 EDT

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

10:30 EDT

CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language 🍐 BOSCMichael Kotliar

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

The all-new Genomics Virtual Lab 🍐 BOSCThe Other Enis Afgan

11:30 EDT

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 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 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 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 P7-04: : What’s new with nf-core: community-built bioinformatics pipelines 🍐 JointPhil Ewels

12:31 EDT

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

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

13:05 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

14:00 EDT

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