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Transcriptome, Gene Expression, Next-Generation Sequencing, RNA-seq Pipeline, SAMMate, SAM/BAM Format, Single-end/Paired-end
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Computational Pipeline For Human Transcriptome Quantification Using Rna-Seq Data, Guorong Xu
Computational Pipeline For Human Transcriptome Quantification Using Rna-Seq Data, Guorong Xu
University of New Orleans Theses and Dissertations
The main theme of this thesis research is concerned with developing a computational pipeline for processing Next-generation RNA sequencing (RNA-seq) data. RNA-seq experiments generate tens of millions of short reads for each DNA/RNA sample. The alignment of a large volume of short reads to a reference genome is a key step in NGS data analysis. Although storing alignment information in the Sequence Alignment/Map (SAM) or Binary SAM (BAM) format is now standard, biomedical researchers still have difficulty accessing useful information. In order to assist biomedical researchers to conveniently access essential information from NGS data files in SAM/BAM format, we have …