RT Journal
A1 Wendl, Michael C.
A1 Dear, Simon
A1 Hodgson, Dave
A1 Hillier, LaDeana
T1 Automated Sequence Preprocessing in a Large-Scale Sequencing Environment
JF Genome Research 
JO Genome Research 
YR 1998 
FD September 01 
VO 8 
IS 9 
SP 975 
OP 984 
DO 10.1101/gr.8.9.975 
UL http://genome.cshlp.org/content/8/9/975.abstract 
AB A software system for transforming fragments from four-color fluorescence-based gel electrophoresis experiments into assembled sequence is described. It has been developed for large-scale processing of all trace data, including shotgun and finishing reads, regardless of clone origin. Design considerations are discussed in detail, as are programming implementation and graphic tools. The importance of input validation, record tracking, and use of base quality values is emphasized. Several quality analysis metrics are proposed and applied to sample results from recently sequenced clones. Such quantities prove to be a valuable aid in evaluating modifications of sequencing protocol. The system is in full production use at both the Genome Sequencing Center and the Sanger Centre, for which combined weekly production is ∼100,000 sequencing reads per week.