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555dbc00b3
Signed-off-by: bedlam <dave@slackbuilds.org> Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
40 lines
1.4 KiB
Text
40 lines
1.4 KiB
Text
The programs part of the Staden package provide an excellent and fully
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developed set 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
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search, experiment suggestion, read pair analysis and contig editing.
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* GAP5: The new development version of Gap4, designed to work with 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
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results graphically and has a sliding sequence window linked to the
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plots.
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* TREV: A rapid and flexible viewer and editor for ABI, ALF or SCF trace
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files.
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NOTE: Xfce submenus
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For XFCE, if you want to have the menu entries grouped in a submenu
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folder (multilevel menu entry), do:
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SUBMENU="YES" ./staden.SlackBuild
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NOTE: Staden and EMBOSS:
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Staden used to provide a GUI for (at least part of) the programs from
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EMBOSS. To give it a try, run this after install (of course you need to
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have installed EMBOSS, too):
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create_emboss_files
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This will create some files in:
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/usr/share/staden/tcl/spin_emboss/acdtcl/
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CITING
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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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