The genome reconstruction manager: a software environment for supporting high-throughput DNA sequencing.
A new software system designed for use in high-throughput DNA sequencing laboratories is described. The Genome Reconstruction Manager (GRM) was developed from requirements derived from ongoing large-scale DNA sequencing projects. Object-oriented principles were followed in designing the system, and tools supporting object-oriented system development were employed for its implementation. GRM provides several advances in software support for high-throughput DNA sequencing: support for random, directed, and mixed sequencing strategies; a novel system for fragment assembly; a commercial object data-base management system for data storage; a client/server architecture for using network computational servers; and an underlying data model that can evolve to support fully automatic sequence reconstruction. GRM is currently being deployed for production use in high-throughput DNA sequencing projects.
Lawrence
C B
CB
Department of Cell Biology, Baylor College of Medicine, Houston, Texas 77030.
Honda
S
S
Parrott
N W
NW
Flood
T C
TC
Gu
L
L
Zhang
L
L
Jain
M
M
Larson
S
S
Myers
E W
EW
D000465:Algorithms; D001483:Base Sequence; D003628:Database Management Systems; D016678:Genome; D008969:Molecular Sequence Data; D017422:Sequence Analysis, DNA; D012985:Software Design