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28 lines
1.4 KiB
Text
28 lines
1.4 KiB
Text
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The programs part of the Staden package provide a fully developed set
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of DNA sequence assembly, editing, analysis and more.
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Some of its features include:
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GAP4 - Performs assembly, contig joining, assembly checking, repeat search,
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experiment suggestion, read pair analysis and contig editing.
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GAP5 - The new development version of Gap4, designed to work with the large
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volumes of data attainable through the newer sequencing technologies.
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PREGAP4 - Provides a graphical user interface to set up the processing
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required to prepare trace data for assembly or analysis.
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SPIN - Compares pairs of sequences in many ways, often presenting its results
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graphically and has a sliding sequence window linked to the plots.
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TREV - A rapid and flexible viewer and editor for ABI, ALF or SCF trace files.
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For more information and citing, visit Staden's web page and check the
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"References" file in the documentation.
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This requires io_lib and tklib.
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Notes:
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1) You should run the SlackBuild in real root environment (su -)!
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2) Make sure you have Emacs and Tetex installed, as they are needed
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to generate the documentation.
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3) Slackware's TCL and TK sources are expected to be in /tmp at build
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time. The SlackBuild will unpack them in the build directory and
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create the necessary symlinks in /tmp. You can safely delete the
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symlinks when the build is complete.
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