SummarizedExperiment
objects This workshop demonstrates the use of the iSEE package to create and configure interactive applications for the exploration of various types of genomics data sets (e.g., bulk and single-cell RNA-seq, CyTOF, gene expression microarray).
This workshop will be presented as a lab session that combines an instructor-led live demo, followed by hands-on experimentation guided by completely worked examples and stand-alone notes that participants may continue to use after the workshop.
The instructor-led live demo comprises three parts:
The hands-on lab comprises three part:
Participants are encouraged to ask questions at any time during the workshop.
SummarizedExperiment
and SingleCellExperiment
classesAdditional background reading about the programming environment, relevant packages, and example use cases:
Students will participate by following along an R markdown document, and asking questions throughout the workshop. There is also scope for participants to apply iSEE to their own data sets, and fuel the discussion with more questions about specific use cases.
| Activity | Time | |-----------------------------------------------|------| | Lecture: Overview of package and concepts | 15m | | Live demo: the user interface | 15m | | Lab: Configuring the app interface | 20m | | Lab: A single-cell RNA-seq workflow | 20m | | Lab: Custom panels | 20m | | Additional questions | 15m |
Total: 1h45
SummarizedExperiment
and SingleCellExperiment
for downstream analyses and visualizationSummarizedExperiment
and SingleCellExperiment
objectsAdd the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.