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contig assembly phrap  (PrimerDesign Inc)
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PrimerDesign Inc contig assembly phrap
Illustration of Gap Mapper algorithm for <t>contig</t> calculation . Clone reads deemed to be of sufficient quality are supplemented by a pseudo read generated from the reference sequence with all bases set to a confidence score of 19 and submitted to the <t>Phrap</t> <t>assembly</t> process. The alignment matrix of clone reads is retrieved from Phrap output in order to determine the positions of each read relative to the reference sequence. Consensus sequences and confidence scores are computed for the various contigs using a naïve Bayes classifier, and the results are reported. The calculated contigs are trimmed to drop low confidence tails.
Contig Assembly Phrap, supplied by PrimerDesign Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/contig+assembly+phrap/pmc01914086-80-22-33?v=PrimerDesign+Inc
Average 90 stars, based on 1 article reviews
contig assembly phrap - by Bioz Stars, 2026-06
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Illustration of Gap Mapper algorithm for contig calculation . Clone reads deemed to be of sufficient quality are supplemented by a pseudo read generated from the reference sequence with all bases set to a confidence score of 19 and submitted to the Phrap assembly process. The alignment matrix of clone reads is retrieved from Phrap output in order to determine the positions of each read relative to the reference sequence. Consensus sequences and confidence scores are computed for the various contigs using a naïve Bayes classifier, and the results are reported. The calculated contigs are trimmed to drop low confidence tails.

Journal: BMC Bioinformatics

Article Title: A novel approach to sequence validating protein expression clones with automated decision making

doi: 10.1186/1471-2105-8-198

Figure Lengend Snippet: Illustration of Gap Mapper algorithm for contig calculation . Clone reads deemed to be of sufficient quality are supplemented by a pseudo read generated from the reference sequence with all bases set to a confidence score of 19 and submitted to the Phrap assembly process. The alignment matrix of clone reads is retrieved from Phrap output in order to determine the positions of each read relative to the reference sequence. Consensus sequences and confidence scores are computed for the various contigs using a naïve Bayes classifier, and the results are reported. The calculated contigs are trimmed to drop low confidence tails.

Article Snippet: Some basic sequencing programs handle pre-processing of sequence trace files, base calling [ ], quality clipping, vector trimming and removal [ ], contig assembly (phrap [ ] or TIGR assembler [ ]) and primer design [ ].

Techniques: Generated, Sequencing