Mercurial > repos > iuc > gemini_dump
diff readme.rst @ 0:187b57debbba draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/gemini commit 4bbfca6f0e9cae9a8f263aad4eab7304c96358c4
author | iuc |
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date | Thu, 18 Feb 2016 08:56:38 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/readme.rst Thu Feb 18 08:56:38 2016 -0500 @@ -0,0 +1,65 @@ +========================= +Galaxy wrapper for GEMINI +========================= + + +GEMINI: a flexible framework for exploring genome variation + +GEMINI (GEnome MINIng) is designed to be a flexible framework for exploring genetic variation in the context of +the wealth of genome annotations available for the human genome. By placing genetic variants, sample genotypes, +and useful genome annotations into an integrated database framework, GEMINI provides a simple, flexible, yet very +powerful system for exploring genetic variation for for disease and population genetics. + +Using the GEMINI framework begins by loading a VCF file into a database. Each variant is automatically +annotated by comparing it to several genome annotations from source such as ENCODE tracks, UCSC tracks, +OMIM, dbSNP, KEGG, and HPRD. All of this information is stored in portable SQLite database that allows +one to explore and interpret both coding and non-coding variation using “off-the-shelf” tools or an +enhanced SQL engine. + +Please also see the original [manuscript](http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003153). + + +============ +Installation +============ + +It is recommended to install this wrapper via the `Galaxy Tool Shed`. + +.. _`Galaxy Tool Shed`: https://testtoolshed.g2.bx.psu.edu/view/iuc/gemini + + +======= +History +======= +- 0.9.1: Initial public release + + +==================== +Detailed description +==================== + +View the original GEMINI documentation: http://gemini.readthedocs.org/en/latest/index.html + + +=============================== +Wrapper Licence (MIT/BSD style) +=============================== + +Permission to use, copy, modify, and distribute this software and its +documentation with or without modifications and for any purpose and +without fee is hereby granted, provided that any copyright notices +appear in all copies and that both those copyright notices and this +permission notice appear in supporting documentation, and that the +names of the contributors or copyright holders not be used in +advertising or publicity pertaining to distribution of the software +without specific prior permission. + +THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL +WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED +WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE +CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT +OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS +OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE +OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE +OR PERFORMANCE OF THIS SOFTWARE. +