Developer Day is part of the Bioconductor annual conference; Developer Day is on July 17, 2013. This page is under active development, and will be until July 17!
8:45 - 12:00 Morning
8:45 - 9:00 Welcome and orientation
9:00 - 9:45 Core team project highlights.
VariantAnnotation light-weight functions and performance
paired end input [Valerie]
cols, and ranges in the
select interface of *Db packages.
Single Package Builder; package reviews [Marc, Dan, L].
Work flows, BiocStyle. Github integration [Dan, Martin].
Cloud-aided computation, e.g., ensemblVEP; AnnotationHub [Martin]
Mentored projects [L, Valerie]. Google Summer of Code: displayR [Marc / Shawn]; BiocParallel [Michel, Michael, Martin].
9:45 - 10:30 Small group team-building activities.
Quick fix -- Brainstorm about and implement a missing but useful feature to be shared by Bioconductor packages. [Martin, Valerie, Herve]
Unit tests coming and going -- Brainstorm and implement tests describing a new feature; fix buggy code with test. [Paul, Laurent, Dan, Marc]
10:50 - 12:00 Variants:
Presentation by Paul Pyl, EMBL, rhdf5-supported variant calling; Additional presentations and open discussion on variant calling and down-stream analysis.
12:00 - 1:00 Lunch
1:00 - 5:00 Afternoon
1:00 - 1:50 Participant flashlight presentations (short talks).
Adrian Alexa, Illumina, BaseSpaceR; Davide Rambaldi, flowFit for use in stem cell research; Tengfei Yin, Updates on ggbio; Bioc Asia; Brian Bot, Synapse.
1:50 - 2:40 Developer workshops -- Suggestions:
knitr [Yihui]; Packages, incl. DESCRIPTION [Paul, Laurent]; S4 classes, methods, NAMESPACEs, BiocGenerics, documentation [Val, Herve]; h5vc [Paul];
3:20 - 4:00 Tackling Big Data with R: new features and concepts for handling large and streaming data in practice
4:00 - 4:40 Developer workshops
Writing work flows for domain experts [Marc, Dan]; Profiling and debugging R, C code [Dan, Martin]; Elements of parallel programming [Simon]; Rcpp [Laurent, Val].
4:40 - 5:10: Developer Day address: Joe Cheng / RStudio
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