Data Structures and Packages for Reproducible High-throughput Analysis

1. Introduction

Slides

2. A Generalized Interface for Annotations

Slides

3. High-level S4 Containers for HTS Data

Slides Solutions to exercises

4. Annotation of Genetic Variants

Slides Exercises

ChIP-Seq Analysis with R and Bioconductor

Slides R Code Data Sets

Isoform-specific RNA-seq

Slides R Code Package

Run the following R code to install the dependencies for this package:

source("http://www.tengfei.name/projects/ggbio/utils/installer.R")

Genetics of Expression and the Implementation of Very High Throughput Statistical Test Procedures

Slides

Accomplishing Exome Sequencing Data Tasks with Bioconductor

Slides Website

Machine Learning for Next-Generation Sequence Analysis

Slides

Biclustering and Analysis of Large Gene Sets

Slides