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Author:

Rahman, Amatur

Title:

Compression Algorithms for de Bruijn Graphs and Uncovering Hidden Assembly Artifacts

Graduate Program:

Computer Science and Engineering (PHD)

Keywords:

de Bruijn graph
compression
k-mer set
colored de Bruijn graph
assembly
unitig
unitig algorithm
assembly artifact
bidirected de Bruijn graph
palindromic unitig

File:

Download psu_phd_amatur.pdf

Committee Members:

Chitaranjan Das, Program Head/Chair
David Koslicki, Major Field Member
Paul Medvedev, Chair & Dissertation Advisor
Francesca Chiaromonte, Outside Unit & Field Member
Mingfu Shao, Major Field Member

Author:

Li, Xiang

Title:

Bridging Paired-end RNA-seq reads

Graduate Program:

Computer Science and Engineering

Keywords:

RNA-seq
transcript assembly
de Bruijn graph

File:

Download Final.pdf

Committee Members:

Mingfu Shao, Thesis Advisor/Co-Advisor
Chitaranjan Das, Program Head/Chair
Paul Medvedev, Committee Member