Phred is not included as part of the Staden Package. It is available from Phil
Phred is an ABI base caller. Ewing, B. and Green, P. 1998. Base-Calling
of Automated Sequencer Traces Using Phred. II. Error Probabilities. Genome
Res. 8, 186-194. It will analyse the chromatogram data to produce new base
calls. For each base it assigns confidence value indicating how likely this
base call is to be correct. These confidence values are significantly more
reliable than those produced by eba and they are compatible with the Phrap
assembly program and the gap4 consensus algorithm.
Phred can process either ABI or SCF files, but pregap4 will automatically
convert all input to SCF format first. This means that the phred pregap4
module will be able to process any supported trace format.
There are no adjustable parameters for this module.
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Last generated on 22 October 2002.