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BioC 2018: Where Software and Biology Connect

When: July 25 (Developer Day) 26 and 27, 2018
Where: Victoria University, University of Toronto, Toronto, Canada
Twitter: #bioc2018

Schedule

Developer Day: Wednesday July 25

See the Developer Day schedule.

Day 1: Thursday July 26

Logistics:

8:00 - 8:45 – Registration and breakfast, VC second floor foyer
8:45 - 9:00 – Welcoming remarks – slides (Martin Morgan)
VC 213 Chapel
9:00 - 9:30 – Michael Hoffman University of Toronto.
Virtual ChIP-seq: predicting transcription factor binding by learning from the transcriptome – VC 213 Chapel
9:30 - 10:00 – Elana Fertig John Hopkins University.
Enter the Matrix: Interpreting omics through matrix factorization – VC 213 Chapel
10:00 - 10:30 – Break
10:30 - 11:00 Brenda Andrews University of Toronto.
Analysis of high content microscopy data generated through automated yeast genetics – VC 213 Chapel
11:00 - 12:00 – Contributed talks – VC 213 Chapel
  • Innes BT* and Bader GD. scClustViz - Single-cell RNAseq Cluster Assessment and Interactive Visualisation.
  • Righelli D*, Koberstein J, Gomes B, Zhang N, Angelini C, Peixoto L, Risso D. Differential Enriched Scan 2 (DEScan2): a fast pipeline for broad peak analysis.
  • Adithya M, Bhargava A, Wright E*. Improving the accuracy of taxonomic classification for identifying taxa in microbiome samples.
  • Zhun Miao*, Ke Deng, Xiaowo Wang, Xuegong Zhang. DEsingle for detecting three types of differential expression in single-cell RNA-seq data.
  • Ludwig Geistlinger*, Gergely Csaba, Mara Santarelli, Lucas Schiffer, Marcel Ramos, Ralf Zimmer, and Levi Waldron. Towards a gold standard for benchmarking gene set enrichment analysis.
12:00 - 1:00 – Lunch / Birds-of-a-feather – VC Foyer and Alumni Hall
  • Organizing and coordinating R / Bioconductor meetups – VC 211
1:00 - 2:45 – Workshop Session 1a
1:45 - 2:45 – Workshops Session 1b
2:45 - 3:15 – Break
3:15 - 5:00 – Workshops Session 2a
4:00 - 5:00 – Workshops Session 2b
5:30 - 7:30 – Contributed posters – VC Foyer and Alumni Hall

Day 2: Friday July 27

8:00 - 8:30 – Breakfast, VC Second floor foyer

8:30 - 9:00 – Tim Hughes, University of Toronto.
Binding motifs for DNA and RNA binding proteins – VC 213 Chapel
9:00 - 9:30 – Benjamin Haibe-Kains, Princesss Margaret Cancer
Center, Toronto.
Cancer Biomarker Discovery: Building a Bridge Between Preclinical and Clinical Research – VC 213 Chapel
9:30 - 10:00 – Contributed talks – VC 213 Chapel
  • Lee S*, Cook D, Lawrence M. plyranges: a fluent interface to Bioconductor’s Ranges infrastructure
  • Love MI*, Hickey P, Soneson, C, and Patro R. Automatic metadata propagation for RNA-seq
10:00 - 10:30 – Break
10:30 - 11:00 – Charlotte Soneson, University of Zurich, Switzerland.
A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs – VC 213 Chapel
11:00 - 12:00 – Contributed talks – VC 213 Chapel
  • Albert Y Zhang, Shian Su, Matthew E Ritchie, and Charity W Law*. Unpacking signal from RNA-seq intron reads using Rsubread and limma packages.
  • Steinbaugh MJ*, Kirchner RD, Ho Sui S. bcbioSingleCell: R package for bcbio single-cell analysis.
  • Abbas Rizvi*, Ezgi Karaesmen*, Leah Preus, Michael Sovic, Junke Wang, Lara Sucheston-Campbell. gwasurvivr: an R package to perform survival association testing on imputed genetic data.
  • Nima Hejazi*, Alan Hubbard, Mark van der Laan. Data-Adaptive Estimation and Inference for Differential Methylation Analysis.
  • Rachael V Phillips*, Alan Hubbard. Data Adaptive Evaluation of Preprocessing Methods using Ensemble Machine Learning.
12:00 - 1:00 – Lunch / Birds-of-a-feather – VC Foyer and Alumni Hall
1:00 - 2:45 – Workshops Session 3a
1:45 - 2:45 – Workshops Session 3b
2:45 - 3:15 – Break
3:15 - 5:00 – Workshops Session 4a
4:00 - 5:00 – Workshops Session 4b
5:30 - 7:30 – Contributed posters – VC Foyer and Alumni Hall