Argonne National Laboratory

Upcoming Events

Algorithms and Services for Genome Assembly

Series 
Computational Institute Presentation
Presenter 
Fangfang Xia (MCS)
July 25, 2013 1:00PM to 2:00PM
Location 
University of Chicago, Searle Lab 240A
Type 
Seminar
This talk will be broadcast to Argonne in Building 240 TCS, Room 5172.

Abstract:
Genome assembly is the process of reconstructing entire DNA sequences from fragmentary input. While high-throughput sequencing technology has revolutionized the field of genomic science, assembly, often the first step of many bioinformatics pipelines, remains a computationally expensive problem which is further compounded by the difficulty to evaluate its accuracy. In this talk, I will describe the assembly algorithms, applications and practices. I will focus on a parallel tool we have developed for metagenomic assembly and discuss how it could be improved by building on a kmer-matching library. Finally, I will touch on an extensible pipeline service we are developing to help users find the best assembly.

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