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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566
author fubar
date Sat, 05 Oct 2024 23:58:05 +0000
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124:137e08517410 125:49f3d3878413
1 "use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[8624],{38624:(e,t,n)=>{n.r(t),n.d(t,{default:()=>u});var l=n(7552),c=n(29499),a=n(36715),r=n(58507),o=n(5401),s=n(49823),i=n(22168);function u({handleClose:e}){return l.createElement(s.Dialog,{maxWidth:"xl",open:!0,onClose:()=>{e()},title:"Feature sequence panel help"},l.createElement(c.A,null,l.createElement(a.A,{paragraph:!0},'The "Feature sequence" panel shows the underlying genomic sequence for a given feature, fetched from the reference genome.'),l.createElement(a.A,null,"For gene features, this panel does special calculations to e.g. stitch together the coding sequence, the options are:"),l.createElement("ul",null,l.createElement("li",null,"CDS - shows the stitched together CDS sequences"),l.createElement("li",null,'Protein - the translated coding sequence, with the "standard" genetic code'),l.createElement("li",null,"cDNA - shows the 'copy DNA' of transcript, formed from exon sequences"),l.createElement("li",null,"Genomic w/ introns +/- Nbp up+down stream - the sequence underlying the entire gene including including introns, with UTR and CDS highlighted")),l.createElement(a.A,{paragraph:!0},"For other feature types, the options are:"),l.createElement("ul",null,l.createElement("li",null,"Genomic +/- Nbp up+down stream - the reference genome sequence underlying the feature, with the up and downstream sequence")),l.createElement(a.A,null,'Note 1: you can use the "gear icon" ',l.createElement(i.A,null)," to edit the number of bp displayed up/downstream and in the intron region"),l.createElement(a.A,null,"Note 2: The 'Copy HTML' function retains the colors from the sequence panel but cannot be pasted into some programs like notepad that only expect plain text.")),l.createElement(r.A,null,l.createElement(o.A,{onClick:()=>{e()},autoFocus:!0,variant:"contained"},"Close")))}},22168:(e,t,n)=>{n.d(t,{A:()=>a});var l=n(74893),c=n(69500);const a=(0,l.A)((0,c.jsx)("path",{d:"M19.14 12.94c.04-.3.06-.61.06-.94 0-.32-.02-.64-.07-.94l2.03-1.58c.18-.14.23-.41.12-.61l-1.92-3.32c-.12-.22-.37-.29-.59-.22l-2.39.96c-.5-.38-1.03-.7-1.62-.94l-.36-2.54c-.04-.24-.24-.41-.48-.41h-3.84c-.24 0-.43.17-.47.41l-.36 2.54c-.59.24-1.13.57-1.62.94l-2.39-.96c-.22-.08-.47 0-.59.22L2.74 8.87c-.12.21-.08.47.12.61l2.03 1.58c-.05.3-.09.63-.09.94s.02.64.07.94l-2.03 1.58c-.18.14-.23.41-.12.61l1.92 3.32c.12.22.37.29.59.22l2.39-.96c.5.38 1.03.7 1.62.94l.36 2.54c.05.24.24.41.48.41h3.84c.24 0 .44-.17.47-.41l.36-2.54c.59-.24 1.13-.56 1.62-.94l2.39.96c.22.08.47 0 .59-.22l1.92-3.32c.12-.22.07-.47-.12-.61zM12 15.6c-1.98 0-3.6-1.62-3.6-3.6s1.62-3.6 3.6-3.6 3.6 1.62 3.6 3.6-1.62 3.6-3.6 3.6"}),"Settings")}}]);
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