Mercurial > repos > iuc > gprofiler_gost
diff README @ 0:51916b7025ba draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gprofiler/ commit ed9b518a6aaf6a5aada47e39c039f6936e41b290"
author | iuc |
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date | Thu, 14 Nov 2019 06:00:39 -0500 |
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children | bf39cdd007f5 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README Thu Nov 14 06:00:39 2019 -0500 @@ -0,0 +1,52 @@ +Galaxy wrapper for gprofiler2 +========================= + +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. + +Installation +============ + +The recommended installation is by means of the toolshed_. + +.. _toolshed: http://toolshed.g2.bx.psu.edu/ + +As HTML content is blocked from display, to render optional Plotly output gProfiler GOSt (gprofiler_gost) should be allowed +at Admin > Tool Management > Manage whitelist. + + +History +======= + +* v0.1.6+galaxy10 - add custom background support, fix dependencies, add messages to stdout +* v0.1.6+galaxy9 - add notification, fix tests +* v0.1.6+galaxy8 - improve formatting +* v0.1.6+galaxy7 - add random tool, update gprofiler2 version, major refactoring, add tests +* v0.1.6+galaxy6 - fix tools' names +* v0.1.6+galaxy5 - remove random tool +* v0.1.6+galaxy4 - modify commands and names to lowercase +* v0.1.6+galaxy3 - add r-base to requirements, fixes for suite +* v0.1.6+galaxy2 - remove r-base from requirements, fixes for Linux +* v0.1.6+galaxy1 - add r-base to requirements +* v0.1.6+galaxy0 - initial release + + +Licence (MIT) +============= + +Permission is hereby granted, free of charge, to any person obtaining a copy +of this software and associated documentation files (the "Software"), to deal +in the Software without restriction, including without limitation the rights +to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +copies of the Software, and to permit persons to whom the Software is +furnished to do so, subject to the following conditions: + +The above copyright notice and this permission notice shall be included in +all copies or substantial portions of the Software. + +THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN +THE SOFTWARE.