Mercurial > repos > gga > apollo_fetch_jbrowse
view test-data/dataset_1_files/jbrowse.conf @ 12:30ea2be4a236 draft
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 6d9302680b01ce11a8f2ee744942296243d5d004"
author | gga |
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date | Fri, 24 Apr 2020 09:03:01 -0400 |
parents | dca2fb399ee6 |
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#### JBrowse main configuration file ## uncomment the section below to customize this browser's title and description # [aboutThisBrowser] # title = <i>Oryza sativa</i> # description = Browser for O. sativa transcripts and RNA-seq data, # produced by the Smith laboratory at Example State University. ## uncomment and edit the example below to configure a faceted track selector # [trackSelector] # type = Faceted # displayColumns = # + label # + key # + organism # + technique ## optionally sort the faceted track selector by column (use the names from displayColumns) # initialSortColumn=label ## optionally give different names to some of the data facets using renameFacets # [trackSelector.renameFacets] # submission = Submission ID # developmental-stage = Conditions # cell-line = Cell Line # key = Dataset # label = Track ## uncomment this section to get hierarchical trackselector options # [trackSelector] ## optionally turn off sorting for the hierarchical track selector # sortHierarchical = false ## set collapsed categories for the hierarchical track selector # collapsedCategories = Reference sequence,Quantitative / XY Plot ## set category ordering in the hierarchical track selector # categoryOrder = BAM, Transcripts, Quantitative/Density, VCF ## configure where to get metadata about tracks. always indexes the ## `metadata` part of each track config, but this can be used to load ## additional metadata from CSV or JSON urls # [trackMetadata] # sources = data/trackMetadata.csv [GENERAL] ## add a document.domain to set the same-origin policy # documentDomain=foobar.com ## use classic jbrowse menu with file instead of track and genome #classicMenu = true ## hide open genome option #hideGenomeOptions = true ## enable or disable high resolution rendering for canvas features. set to auto, disabled, or numerical scaling factor. default: 2 # highResolutionMode=auto ## uncomment to change the default sort order of the reference ## sequence dropdown # refSeqOrder = length descending ## Uncomment to prevent HTML tracks from displaying gene subfeatures (enabled by default) # inferHTMLSubfeatures = false ## to set a default data directory other than 'data', uncomment and ## edit the line below # dataRoot = data ## optionally add more include statements to load and merge in more ## configuration files include = {dataRoot}/trackList.json include += {dataRoot}/tracks.conf # include += ../url/of/my/other/config.json # include += another_config.conf ## uncomment and edit the example below to enable one or more ## JBrowse plugins # [ plugins.MyPlugin ] # location = plugins/MyPlugin # [ plugins.AnotherPlugin ] # location = ../plugin/dir/someplace/else ## edit the datasets list below to add datasets to the jbrowse dataset ## selector # [datasets.volvox] # url = ?data=sample_data/json/volvox # name = Volvox Example # [datasets.modencode] # url = ?data=sample_data/json/modencode # name = MODEncode Example # [datasets.yeast] # url = ?data=sample_data/json/yeast # name = Yeast Example [ plugins.BlastView ] location = ../plugin/BlastView/ [ plugins.GCContent ] location = ../plugin/GCContent/ [ plugins.ComboTrackSelector ] location = ../plugin/ComboTrackSelector/ [ plugins.MultiBigWig ] location = ../plugin/MultiBigWig/ [ plugins.bookmarks ] location = ../plugin/bookmarks/ [ plugins.NeatCanvasFeatures ] location = ../plugin/NeatCanvasFeatures/ [ plugins.NeatHTMLFeatures ] location = ../plugin/NeatHTMLFeatures/