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annotate README @ 0:e219aca2f9fc draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
author iuc
date Thu, 14 Nov 2019 05:59:47 -0500
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children 8ee097f1763d
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e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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1 Galaxy wrapper for gprofiler2
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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2 =========================
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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4 g:Profiler is a widely used toolset for finding biological categories enriched in gene lists, conversions between gene identifiers and mappings to their orthologs. Mission of g:Profiler is to provide a reliable service based on up to date high quality data in a convenient manner across many evidence types, identifier spaces and organisms. g:Profiler relies on Ensembl as a primary data source and follows their quarterly release cycle while updating the other data sources simultaneously. g:Profiler provides modern responsive interactive web interface, standardised API, an R package gprofiler2 and libraries. The results are delivered through interactive and configurable interface. Results can be downloaded as publication ready visualisations or delimited text files. g:Profiler supports close to 500 species and strains, including vertebrates, plants, fungi, insects and parasites. By supporting user uploaded custom GMT files, g:Profiler is capable of analysing data from any organism. All past releases are maintained for reproducibility and transparency. g:Profiler is freely available for all users at https://biit.cs.ut.ee/gprofiler.
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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6 Installation
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7 ============
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9 The recommended installation is by means of the toolshed_.
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11 .. _toolshed: http://toolshed.g2.bx.psu.edu/
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e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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13 As HTML content is blocked from display, to render optional Plotly output gProfiler GOSt (gprofiler_gost) should be allowed
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14 at Admin > Tool Management > Manage whitelist.
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17 History
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18 =======
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20 * v0.1.6+galaxy10 - add custom background support, fix dependencies, add messages to stdout
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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21 * v0.1.6+galaxy9 - add notification, fix tests
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22 * v0.1.6+galaxy8 - improve formatting
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23 * v0.1.6+galaxy7 - add random tool, update gprofiler2 version, major refactoring, add tests
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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24 * v0.1.6+galaxy6 - fix tools' names
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25 * v0.1.6+galaxy5 - remove random tool
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26 * v0.1.6+galaxy4 - modify commands and names to lowercase
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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27 * v0.1.6+galaxy3 - add r-base to requirements, fixes for suite
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28 * v0.1.6+galaxy2 - remove r-base from requirements, fixes for Linux
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29 * v0.1.6+galaxy1 - add r-base to requirements
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30 * v0.1.6+galaxy0 - initial release
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33 Licence (MIT)
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34 =============
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35
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36 Permission is hereby granted, free of charge, to any person obtaining a copy
e219aca2f9fc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
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37 of this software and associated documentation files (the "Software"), to deal
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38 in the Software without restriction, including without limitation the rights
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39 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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40 copies of the Software, and to permit persons to whom the Software is
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41 furnished to do so, subject to the following conditions:
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42
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43 The above copyright notice and this permission notice shall be included in
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44 all copies or substantial portions of the Software.
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46 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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47 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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48 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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49 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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50 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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51 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
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52 THE SOFTWARE.