Schedule

Time (ET)	Session	Presenting author(s)	Title/Event	YouTube
08:00	Registration		Registration/Breakfast
08:30	Keynote	Vince Carey	Introduction
09:00	Keynote	JJ Allaire	Keynote: Reproducible Manuscripts with Quarto
10:00	Short talks track	Afrooz Razi Pedro Baldoni Sonali Arora Daianna Gonzalez-Padilla	RNA-seq
10:00	Short talks track	Brian Schilder Qian Liu Jayaram Kancherla Stefano Mangiola	Infrastructure
10:00	Short talks track	Kinnary Shah Nicholas J Eagles Yi Wang Sowmya Parthiban	Spatial transcriptomics
11:00	Short talks track	Nicholas Cheng Ryan C Thompson Lauren Marie Harmon Peter Yizhou Huang	Epigenetics and multi-omics track
11:00	Package demo	Mercedeh Movassagh	mbQTL: An R/Bioconductor Package for Microbial Quantitative Trait Loci (QTL) Estimation
11:00	Short talks track	Xiuwen Zheng Meghana Kshirsagar Jae Min Park Zachary DeBruine	Single-cell
12:00	Lunch break		Lunch break
13:00	Keynote	Sam Lent	Keynote: Weighing the benefits and risks of making 'de-identifiable' genomics data public
14:00	Package demo	Louise A. Huuki-Myers	Analyzing Spatially-Resolved Transcriptomics Data from Visium using spatialLIBD
14:00	Workshop	Arpan Neupane	Reproducible and programmatic analysis of flow cytometry experiments with the cytoverse**
14:00	Workshop	Jiefei Wang	High-Performance Computing in R for Genomic Research**
15:00	Package demo	Jiaji George Chen	Giotto Suite: A multi-scale and technology-agnostic spatial omics analysis framework
16:00	Break-Networking		Break/Networking
16:30	Package demo	Ellis Patrick	Statial: A Bioconductor package for identifying spatially-related changes in cell state
16:30	Package demo	Stevie M Pederson	extraChIPs: Detection and Visualisation of Differential ChIP-Seq Signal
16:30	Package demo	Qian Liu	Use R to Create and Execute Reproducible CWL Workflows for Genomic Research

Workshop/demo levels: * - beginner, recommended for starting with Bioconductor; ** - intermediate; *** - advanced.

Thursday, August 3, 2023

Time (ET)	Session	Presenting author(s)	Title/Event	YouTube
08:00	Breakfast		Breakfast
08:30	Keynote	Beth Cimini	Keynote: Making the most of your microscopy with high-content analysis
09:30	Short talks track	Sara Stankiewicz Jacob Krol Natasha Gurevich	Cancer, Evolution
09:30	Short talks track	Jared T Brown Harkirat Kaur Sohi Peiying Cai Shiheng Huang	Spatial transcriptomics
09:30	Package demo	Jacques Serizay	Orchestrating Hi-C analysis with Bioconductor
10:30	Birds of a Feather	Maria Doyle	Bioconductor Carpentries global teaching program
10:30	Birds of a Feather	J Wokaty	Cloud Methods
10:30	Package demo	Zuguang Gu	rGREAT: an R/Bioconductor Package for Functional Enrichment on Genomic Regions
11:30	Awards		Awards
12:00	Lunch break		Lunch break
13:00	Keynote	Jeff Moffitt	Keynote: Imaging the Transcriptome: Creating Tissue Atlases with MERFISH
14:00	Workshop	Vincent James Carey	Bridges from python to Bioconductor: applications in genetics and single-cell genomics**
14:00	Workshop	Daianna Gonzalez-Padilla	A Bioconductor-style differential expression analysis powered by SPEAQeasy*
14:00	Package demo	Chloe Anya Mirzayi	Epidemiology for Bioinformaticians
15:00	Package demo	Marcel Ramos	Multi-omic Integration and Analysis of cBioPortal and TCGA data with MultiAssayExperiment
16:00	Break-Networking		Break/Networking
16:30	Birds of a Feather		Bioconductor and the Latin American Bioinformatics Landscape: Challenges and Opportunities
16:30	Short talks track	Noor Pratap Singh Molly Martorella Matt McCall Sean Maden Jean-Philippe Fortin	RNA-seq
16:30	Short talks track	Outreachy team Atuhurira Kirabo Kakopo Beryl Kanali Jen Wokaty	Outreachy Birds of a Feather
17:30	Posters		Poster session

Workshop/demo levels: * - beginner, recommended for starting with Bioconductor; ** - intermediate; *** - advanced.

Friday, August 4, 2023

Time (ET)	Session	Presenting author(s)	Title/Event	YouTube
08:30	Breakfast		Breakfast
09:00	Keynote	Heng Li	Keynote: Genome assembly in the telomere-to-telomere era
10:00	Short talks track	Mengbo Li Simone Tiberi Samuel David Gamboa-Tuz Leo M Lahti	Microbiome, Proteomics
10:00	Short talks track	Ahmad Al Ajami Phillip Nicol Joshua Campbell Jill Lundell	Single-cell
10:00	Package demo	Stefano Mangiola	Tidy genomic and transcriptomic single-cell analyses
11:00	Short talks track	Alexandru Mahmoud Lucas Schiffer Sehyun Oh Zuguang Gu	Infrastructure
11:00	Package demo	Hedia Tnani	Differential Expression Analysis using Limma and qsvaR
11:00	Package demo	Michael P Lynch	demuxSNP: supervised demultiplexing of scRNAseq data using cell hashing and SNPs
11:30	Meet the team		Meet the Core
11:30	Meet the team		Meet the Community Advisory Board (CAB)
11:30	Meet the team		Meet the Technical Advisory Board (TAB)
12:00	Lunch break		Lunch break
13:00	Keynote	Nancy Zhang	Keynote: Spatial transcriptomics data analysis: Cancer subclone detection and niche-differential expression analysis
14:00	Workshop	Lambda Moses	Voyager: Exploratory spatial data analysis from geospatial to spatial -omics**
14:00	Package demo	Jianhong Ou	A shiny application for single cell RNA-seq visualization
14:00	Workshop	Eric Scott Davis	Mariner: Explore the Hi-Cs**
15:00	Talk track		Lightning Talks
16:00	Talk track		Lightning Talks
16:00	Package demo	Izabela Mamede Conceição	Isoformic: Isoform level biological interpretation from transcriptomic data
16:00	Package demo	Yingxin Lin	Atlas-scale single-cell multi-sample multi-condition data integration using scMerge2

Workshop/demo levels: * - beginner, recommended for starting with Bioconductor; ** - intermediate; *** - advanced.