Abstract

in specialized cases) because this is an unusual and underappreciated use of sequencing technology. PolyPhred (4) can automatically call genotypes at predefined sites through the use of manual tags in the “.polyphredrc” file. However, PolyPhred and Consed had a different and broader design scope than that of genotype calling. Because the interface is mainly designed to support contig assembly, the “vertical” assessment of hundreds of sequences at one specific base is difficult. GenBank ® files cannot be directly processed, and the incorporation of manual call correction performed in Consed requires extra effort. Finally, a moder

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