22 lines
1.2 KiB
Text
22 lines
1.2 KiB
Text
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Phrap is a program for assembling shotgun DNA sequence data.
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Among other features, it allows use of the entire read and not just the
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trimmed high quality part, it uses a combination of user-supplied and
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internally computed data quality information to improve assembly accuracy
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in the presence of repeats, it constructs the contig sequence as a mosaic
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of the highest quality read segments rather than a consensus, it provides
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extensive assembly information to assist in trouble-shooting assembly
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problems, and it handles large datasets.
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This package also contains Swat and Cross_match.
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Swat is a program for searching one or more DNA or protein query sequences
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against a sequence database, using (an efficient implementation of) the
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Smith-Waterman-Gotoh algorithm.
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Cross_Match is a general-purpose utility based on Swat for comparing any
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two sets of DNA sequences, and it can be used to:
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* produce vector-masked versions of a set of reads
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* compare a set of cDNA sequences to a set of cosmids
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* compare contigs found by two altanative assembly procedures to each other
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* compare phrap contigs to the final edited cosmid sequence.
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WWW: http://www.phrap.org/phredphrapconsed.html
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