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BCC2020 has ended
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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.

BD

Bala Desinghu

Office of Advanced Research Computing
Senior Scientist
New Jersey
Friday, July 17
 

09:00 EDT

West Training 1 Joint

09:01 EDT

Adding Fun(ction) to Microbiome Analysis: Metatranscriptomics and Metaproteomics Workflows in Galaxy Training ETimothy J. Griffin • James Johnson • Saskia Hiltemann • Pratik Jagtap • Subina Mehta Getting started in Git using GitHub Desktop Training AYo Yehudi How to use Reactome data, tools and web services Training BJoel Weiser • Robin Haw • Solomon Shorser • Justin Cook Introduction to Galaxy Administration I Training CThat Other Person • Martin Čech • Nate Coraor • Nicola Soranzo • Helena Rasche Introduction to Using Galaxy Training DDelphine Lariviere • Wolfgang Maier

12:15 EDT

West Training 2 Joint

12:16 EDT

From stars to constellations: Scaling analyses in Galaxy Training DMarius van den Beek • Saskia Hiltemann • Helena Rasche Handling integrated biological data using Python, Jupyter, and InterMine Training Asergio contrino • Yo Yehudi • Rachel Lyne Introduction to Galaxy Administration II Training CThat Other Person • Martin Čech • Nate Coraor • Nicola Soranzo R / Bioconductor in the Cloud Training EMartin Morgan • Nitesh Turaga • Lori Shepherd Scaling genomic analysis with Glow and Apache Spark Training BHenry Davidge • Karen Feng • Rishi Ghose • Michael Shtelma • Frank Nothaft • Kiavash Kianfar • Amir Kermany • Will Brandler

15:30 EDT

West Training 3 Joint

15:31 EDT

Building communities with open source + open science Training AMalvika Sharan • Yo Yehudi Dockstore Fundamentals: Introduction to Docker and Descriptors for Reproducible Analysis Training DLouise Cabansay • Andrew Duncan • Denis Yuen • Gary Lau • Charles Overbeck • Natalie Perez Import, handle, visualize and analyze biodiversity data in Galaxy Training CYvan Le Bras Introduction to Galaxy Administration III Training BThat Other Person • Martin Čech • Nate Coraor Processing of Single Cell RNA-Seq Data with Galaxy Training EBjorn Gruning • Mehmet Tekman • Hans-Rudolf Hotz
 
Saturday, July 18
 

09:01 EDT

Galaxy Code Architecture Training CJohn Chilton • Nate Coraor Introduction to Machine Learning Training AAlireza Khanteymoori • Anup Kumar RNA-Seq analysis with AskOmics Interactive Tool Training BAnthony Bretaudeau • Xavier Garnier Train the Galaxy Trainer Training ESaskia Hiltemann • Delphine Lariviere • Helena Rasche

12:16 EDT

Building communities with open source + open science Training BMalvika Sharan • Yo Yehudi Embedding JBrowse 2 in your website Training CColin Diesh • Garrett Stevens Getting your hands on Climate data Training EAnne Fouilloux Reference data with CVMFS and remote jobs with Pulsar Training DGianmauro Cuccuru • Nate Coraor • Helena Rasche Scripting Galaxy with BioBlend Training AMarius van den Beek • Dannon Baker • Nicola Soranzo

15:31 EDT

Bioinformatics in Education Training EUwe Hilgert • Isabella Viney Fit your tools into any platform with Bioconda and BioContainers Training AAndrea Giachetti • Loraine Guéguen • Vincenzo Laveglia • Yi Sun Introduction to Nextflow Training CEvan Floden • Paolo Di Tommaso • Kevin Sayers Proteomic data analysis in Galaxy Training DMelanie Föll • Matthias Fahrner Reproducible Analysis in the Cloud with Dockstore and Terra Training BLouise Cabansay • Beth Sheets • Beri Shifaw
 
Sunday, July 19
 

10:00 EDT

BCC2020 Conference Day 1: West Joint

11:30 EDT

BOSC West Session 1a: Sequencing & analysis 🍐 BOSCChris Fields Galaxy West Session 1: Applications and use cases 🌀 GalaxyDelphine Lariviere

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

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

Q & A 🌀 GalaxyDelphine Lariviere 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 Streamlining accessibility and computability of large-scale genomic datasets with the NHGRI genome data science Analysis, Visualization, and Informatics Lab-Space (ANVIL) 🍐 BOSCMichael Schatz

12:15 EDT

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

12:20 EDT

Q&A for session B1a 🍐 BOSCChris Fields

12:24 EDT

BOSC West Session 1b: Open data 🍐 BOSCChris Fields

12:25 EDT

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

12:40 EDT

Q & A 🌀 GalaxyDelphine Lariviere

13:00 EDT

Broad Institute Data Sciences Platform Sponsor Table JointGeraldine Van der Auwera eLife Innovation Sponsor Table JointEmmy Tsang 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 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
 
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