Software systems for a DNA sequencer
Name
48981628-MIT.pdf
Description
Full printable version
Size
4.14 MB
Format
Adobe PDF
Checksum (MD5)
40e9be73b42d9e294e635bd28d8ac97e
Author(s)
Ait-Ghezala, Ahmed, 1976-
Advisor(s)
Paul Matsudaira.
Alternative Title
Software systems for a deoxyribonucleic acid sequencer
Date Issued
2000
Publisher
Massachusetts Institute of Technology
Abstract
The initiative to complete the sequencing of the human genome is bringing the need for high-throughput sequencing capabilities to the forefront. We at the BioMEMS engineering group at the Whitehead Institute are designing and building a new sequencing machine that uses a 384 glass "chip" to dramatically increase sequencing rates. This thesis describes the design and implementation of two of the machine's software components. The first is a prototype application for the control of a robot used to automate sample loading. The second is a software filter that allows us to generate quality scores from data processed by Trout using Phred. I present the algorithm used to perform the filtering and show that the results are comparable to the processing of data with the Plan- Phred processing package.
Description
Thesis (M.Eng. and S.B.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2000.
Includes bibliographical references (leaf 49).
Subjects
Electrical Engineering and Computer Science.
MIT Department
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
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