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PubMed · 9521929

Sequence assembly with CAFTOOLS.

S Dear·R Durbin·L Hillier·G Marth·J Thierry-Mieg·R Mott
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Abstract

Large-scale genomic sequencing requires a software infrastructure to support and integrate applications that are not directly compatible. We describe a suite of software tools built around the Common Assembly Format (CAF), a comprehensive representation of a sequence assembly as a text file. These tools form the backbone of sequencing informatics at the Sanger Centre and the Genome Sequencing Center. The CAF format is intentionally flexible, and our Perl and C libraries, which parse and manipulate it, provide powerful tools for creating new applications as well as wrappers to incorporate other software. The tools are available free by anonymous FTP from ftp://ftp.sanger.ac.uk/pub/badger/.

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AlgorithmsBase SequenceComputational BiologyDatabases, FactualGene LibraryGenomeSequence AlignmentSequence Analysis, DNAJournal ArticleResearch Support, Non-U.S. Gov'tResearch Support, U.S. Gov't, P.H.S.

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BibTeXRIS

S Dear, R Durbin, L Hillier, G Marth, J Thierry-Mieg, R Mott. 1998. Sequence assembly with CAFTOOLS.. https://doi.org/10.1101/gr.8.3.260

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