Degree Type

Dissertation

Date of Award

2013

Degree Name

Doctor of Philosophy

Department

Genetics, Development and Cell Biology

First Advisor

Dianne H. Cook

Second Advisor

Eve S. Wurtele

Abstract

Visualization is an important component of biological data analysis. Ideally, visual methods are tightly integrated with analysis methods, so that it is seamless to plot data from different intermediate stages of the analysis. Bioconductor provides a substantial analysis platform, but limited tools for genomic data visualization. Visual tools for genomic data, eg GenomeView, IGV, IGB, primarily are detached from the analysis engine. This research fills this gap, by developing visualization methods that are integrated into the Bioconductor suite. There are three main components of the research:

* New visual tools for genomic data that utilize the latest research in visualization.

* Infrastructure development to support the visual tools, and analysis of other types of biological data.

* Application of the visualization methods to the analysis of RNA-seq and DNA-seq data.

Copyright Owner

Tengfei Yin

Language

en

File Format

application/pdf

File Size

157 pages

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