BOSC 2017 Schedule

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Revision as of 05:12, 22 July 2017 by Peter (talk | contribs) (Day 1 (Saturday, July 22, 2017): Stian Soiland-Reyes' slides)

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Complete Program

Pre-BOSC: Codefest 2017

Codefest 2017 (a pre-BOSC hackathon) will take place July 20-21 at Brmlab, Prague (a non-profit, community-run hackerspace). Codefest is FREE and open to all (even if you're not attending BOSC). See Codefest 2017 for details and to sign up.

Schedule at a glance

Day 1 (Saturday, July 22)
Time Session
8:30-9:30 (ISMB announcements & ISMB keynote)
10:00-10:10 BOSC announcements
10:10-10:45 Introduction to the Open Bioinformatics Foundation; OBF in the Google Summer of Code; Codefest 2017 Report
10:45-12:20 Session: Workflows
12:30-14:00 Lunch, Posters, Birds of a Feather discussions (BoFs)
14:00-15:00 Session: Developer tools and libraries for open science and reproducibility
15:00-16:00 Session: Data Science & Visualization
16:30-17:30 Keynote: Madeleine Ball
17:30-18:30 Birds of a Feather discussions (BoFs)
18:00-19:00 Posters
Day 2 (Sunday, July 23)
Time Session
8:30-9:30 (ISMB announcements & ISMB keynote)
10:00-10:05 BOSC announcements
10:05-11:30 Session: Community Building and Citizen Science
11:30-12:20 Late-Breaking Lightning Talks
12:30-14:00 Lunch, Posters, Birds of a Feather discussions (BoFs)
14:00-15:00 Session: Open Data
15:00-16:00 Panel: Open Data--Standards, Opportunities and Challenges
16:30-17:30 Keynote (Nick Loman) and closing remarks
17:30-18:30 Birds of a Feather discussions (BoFs)
18:00-19:00 Posters

Complete schedule of talks

Day 1 (Saturday, July 22, 2017)

Session Title Speaker (or Session Chair) Start Time End Time
BOSC opening Introduction and welcome Nomi Harris (Chair, BOSC 2017) 10:00 10:10
BOSC opening The Open Bioinformatics Foundation Hilmar Lapp 10:10 10:20
BOSC opening OBF in the Google Summer of Code. Wrapping up 2016 and presenting the 2017 projects Kai Blin 10:20 10:30
BOSC opening Codefest 2017 summary Brad Chapman 10:30 10:45
Session: Workflows Chair: Brad Chapman 10:45 12:20
Workflows Rabix Executor: an open-source executor supporting recomputability and interoperability of workflow descriptions Janko Simonovic 10:45 10:56
Workflows Rabix Composer: an open-source integrated development environment for the Common Workflow Language Ivan Batic 10:56 11:05
Workflows CWL-svg: an open-source workflow visualization library for the Common Workflow Language Maja Nedeljkovic 11:05 11:07
Workflows CWL-ts: an open-source TypeScript library for building developer tools for the Common Workflow Language Maja Nedeljkovic 11:07 11:11
Workflows (Q&A for previous 4 talks) 11:11 11:15
Workflows The GA4GH Tool Registry Service (TRS) and Dockstore - Year One Denis Yuen 11:15 11:22
Workflows The GA4GH Task Execution System (TES) and Funnel Server Brian O'Connor 11:22 11:28
Workflows The GA4GH Workflow Execution Schema (WES) Peter Amstutz 11:28 11:34
Workflows The GA4GH/DREAM Infrastructure Challenges Brian D. O'Connor 11:34 11:41
Workflows (Q&A for previous 4 talks) 11:41 11:45
Workflows Workflows interoperability with Nextflow and Common WL Kevin Sayers 11:45 11:50
Workflows CWL Viewer: The Common Workflow Language Viewer (slides) Stian Soiland-Reyes 11:50 11:55
Workflows Screw: tools for building reproducible single-cell epigenomics workflows Kieran O'Neill 11:55 12:00
Workflows (Q&A for previous 3 lightning talks) 12:00 12:03
Workflows BioThings Explorer: Utilizing JSON-LD for Linking Biological APIs to Facilitate Knowledge Discovery Jiwen Xin 12:03 12:08
Workflows Discovery and visualisation of homologous genes and gene families using Galaxy Anil S. Thanki 12:08 12:13
Workflows YAMP : Yet Another Metagenomic Pipeline Alessia Visconti 12:13 12:18
Workflows (Q&A for previous 3 lightning talks) 12:18 12:20
Birds of a Feather discussions (BoFs) Feel free to organize one! 12:20 13:40
Lunch 12:30 14:00
Session: Developer tools and libraries for open science and reproducibility Chair: Hilmar Lapp 14:00 15:00
Developer tools / reproducibility MultiQC: Visualising results from common bioinformatics tools Phil Ewels 14:00 14:18
Developer tools / reproducibility NGL – a molecular graphics library for the web Alexander S Rose 14:18 14:23
Developer tools / reproducibility GRAPHSPACE: Stimulating interdisciplinary collaborations in network biology Aditya Bharadwaj 14:23 14:28
Developer tools / reproducibility Efficient detection of well-hopping duplicate reads on Illumina patterned flowcells Timothy Booth 14:28 14:33
Developer tools / reproducibility (Q&A for first 3 lightning talks) 14:33 14:36
Developer tools / reproducibility An ensemble approach for gene set testing analysis with reporting capabilities Monther Alhamdoosh 14:36 14:41
Developer tools / reproducibility OpenMS 2.0: a flexible open-source software platform for mass spectrometry data analysis Timo Sachsenberg 14:41 14:46
Developer tools / reproducibility Interoperable, collaborative multi-platform variant calling with bcbio Brad Chapman 14:46 14:51
Developer tools / reproducibility Gene Set Variation Analysis in cBioPortal Kees van Bochove 14:51 14:56
Developer tools / reproducibility (Q&A for last 4 lightning talks) 14:56 15:00
Session: Data Science & Visualization Chair: Karsten Hokamp 15:00 16:00
Data Science & Visualization The backbone of research reproducibility: sustainable and flexible tool deployment Björn Grüning 15:00 15:18
Data Science & Visualization Reproducible bioinformatics software with GNU Guix Pjotr Prins 15:18 15:23
Data Science & Visualization Reproducible and user-controlled software management in HPC with GNU Guix Ricardo Wurmus 15:23 15:28
Data Science & Visualization A Ubiquitous Approach to Reproducible Bioinformatics across Computational Platforms John Chilton 15:28 15:33
Data Science & Visualization (Q&A for first 3 lightning talks) 15:33 15:36
Data Science & Visualization Revitalizing a classic bioinformatics tool using modern technologies: the case of the Cytoscape Project Keiichiro Ono 15:36 15:41
Data Science & Visualization The SPOT ontology toolkit : semantics as a service Olga Vrousgou 15:41 15:46
Data Science & Visualization Biopython Project Update 2017 Sourav Singh 15:46 15:51
Data Science & Visualization (Q&A for last 3 lightning talks) 15:51 15:54
Coffee Break 16:00 16:30
Keynote Open Sourcing Ourselves Madeleine Ball 16:30 17:30
Birds of a Feather discussions (BoFs) Feel free to organize one! 17:30 18:30
Posters (odd-numbered posters present) 18:00 19:00
Dinner Optional pay-your-own-way dinner (must RSVP in advance--space limited) 19:30

Day 2 (Sunday, July 23, 2017)

Session Title Speaker (or Session Chair) Start Time End Time
Day 2 BOSC Announcements Heather Wiencko (Co-Chair, BOSC 2017) 10:00 10:05
Session: Community Building and Citizen Science Chair: Peter Cock 10:05 11:30
Community Building and Citizen Science BeerDeCoded: exploring the beer metagenome Jonathan Sobel 10:05 10:23
Community Building and Citizen Science Supporting curation communities & collecting technical dividends Monica Munoz-Torres 10:23 10:41
Community Building and Citizen Science Journal of Open Source Software (JOSS) Pjotr Prins 10:41 10:59
Community Building and Citizen Science Building an open, collaborative, online infrastructure for bioinformatics training Bérénice Batut 10:59 11:17
Community Building and Citizen Science Software and social strategies for community sourced biological networks and ontologies Dexter Pratt 11:17 11:22
Community Building and Citizen Science Distance-based, online bioinformatics training in Africa: the H3ABioNet experience Nicola Mulder 11:22 11:27
Community Building and Citizen Science (Q&A for previous 2 lightning talks) 11:27 11:30
Session: Late-Breaking Lightning Talks Chair: Nomi Harris 11:30 12:30
LBLTs Recent object formation in the core of Galaxy Martin Cech 11:30 11:35
LBLTs Reproducibility of computational workflows is automated using continuous analysis Brett Beaulieu-Jones 11:35 11:40
LBLTs Full-stack genomics pipelining with GATK4 + WDL + Cromwell Kate Voss 11:40 11:45
LBLTs ToolDog - generating tool descriptors from the ELIXIR tool registry Kenzo-Hugo Hillion 11:45 11:50
LBLTs BioThings SDK: a toolkit for building high-performance data APIs in biology Chunlei Wu 11:50 11:55
LBLTs (Q&A for first 5 LBLTs) 11:55 12:00
LBLTs Integrating cloud storage providers for genomic analyses Ted Liefeld 12:00 12:05
LBLTs Fighting Superbugs with Open Source Software Kai Blin 12:10 12:15
LBLTs (Q&A for last 2 LBLTs) 12:20 12:25
Birds of a Feather discussions (BoFs) Feel free to organize one! 12:30 13:40
Lunch 12:30 14:00
Session: Open Data Chair: Bastian Greshake 14:00 15:00
Open Data RADAR-CNS - Research Infrastructure for processing wearable data to improve health Nivethika Mahasivam 14:00 14:18
Open Data Using Wikidata as an open, community-maintained database of biomedical knowledge Andrew Su 14:18 14:36
Open Data Emerging public databases of clinical genetic test results: Implications for large scale deployment of precision medicine Stephen Lincoln 14:36 14:41
Open Data Discovering datasets with DATS in DataMed Philippe Rocca-Serra 14:41 14:46
Open Data Bioschemas for life science data Carole Goble 14:46 14:51
Open Data Introducing the Brassica Information Portal: Towards integrating genotypic and phenotypic Brassica crop data Annemarie Eckes 14:51 14:56
Open Data (Q&A for previous 4 lightning talks) 14:56 15:00
Panel Panel: Open Data--Standards, Opportunities and Challenges Moderator: Mónica Muñoz-Torres. Panelists: Madeleine Ball, Carole Goble, Nick Loman, Andrew Su 15:00 16:00
Coffee Break 16:00 16:30
Keynote Open data meets ubiquitous sequencing: challenges and opportunities Nick Loman 16:30 17:30
Birds of a Feather discussions (BoFs) Feel free to organize one! 17:30 18:30
Posters (even-numbered posters present) 18:00 19:00
Dinner Optional pay-your-own-way dinner (must RSVP in advance--space limited) 19:30

(Schedule converted from Google Sheets to mediawiki by http://marianogappa.github.io/mediawiki-table-utility/)

Complete Program

Posters

Sponsors

We are grateful to and welcome The Hyve (open source solutions for bioinformatics), Mozilla Science Lab (a community of researchers, developers, and librarians making research open and accessible), Repositive Limited (connecting the genomics community with the data they need), Seven Bridges (the Biomedical Data Analysis Platform) and eLife (cutting-edge technology for cutting-edge research) as new sponsors for BOSC 2017, and GigaScience (an open access, open data, open peer-review journal) as a returning sponsor.

If you would like to be a sponsor of BOSC, please contact us at bosc@open-bio.org.

The Hyve logo
   
Mozilla Science Lab logo
   
Repositive Limited logo
   
GigaScience
   
Seven Bridges
   
eLife

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