text: user2746: Background
  We want to be able to load (or request) data for a genome including the sequence and gene annotation (bacteria). Then, we want to load our own annotation which should be displayed as a line plot:
  position score
  1        5
  2        6
  etc.
  
  Where each position corresponds to the position in the genome (i.e. FASTA).
  Something like this: 
  
  Question
  Is there a tool that can load a genome sequence, gene annotation, and a position ~ score file, which can be displayed as a line plot? 
  
  user3504: You can use UCSC genome browser, which supports custom genome sequence and annotation. Specifically, one needs to create a Track Hub to hold genomes and annotations. 
  Here is an example: 
  
  http://genome.ucsc.edu/cgi-bin/hgTracks?hubUrl=http://zlab-trackhub.umassmed.edu/yfu/insects/hub.txt&db=hub_129615_cl_v0.8.2
  
  And here is the corresponding hub.txt file holding the metadata, and URLs to actual fasta, bigWig and bigBed files.
  
original_text: 2746: <p><strong>Background</strong></p>
  
  <p>We want to be able to load (or request) data for a genome including the sequence and gene annotation (bacteria). Then, we want to load our own annotation which should be displayed as a line plot:</p>
  
  <pre><code>position score
  1        5
  2        6
  etc.
  </code></pre>
  
  <p>Where each position corresponds to the position in the genome (i.e. FASTA).
  Something like this: </p>
  
  <p><a href="https://i.stack.imgur.com/QWfgP.png" rel="nofollow noreferrer"><img src="https://i.stack.imgur.com/QWfgP.png" alt="enter image description here"></a></p>
  
  <p><strong>Question</strong></p>
  
  <p>Is there a tool that can load a genome sequence, gene annotation, and a position ~ score file, which can be displayed as a line plot? </p>
   3504: <p>You can use UCSC genome browser, which supports custom genome sequence and annotation. Specifically, one needs to create a <a href="https://genome.ucsc.edu/goldenpath/help/hgTrackHubHelp.html" rel="nofollow noreferrer">Track Hub</a> to hold genomes and annotations. </p>
  
  <p>Here is an example: </p>
  
  <blockquote>
    <p><a href="http://genome.ucsc.edu/cgi-bin/hgTracks?hubUrl=http://zlab-trackhub.umassmed.edu/yfu/insects/hub.txt&amp;db=hub_129615_cl_v0.8.2" rel="nofollow noreferrer">http://genome.ucsc.edu/cgi-bin/hgTracks?hubUrl=http://zlab-trackhub.umassmed.edu/yfu/insects/hub.txt&amp;db=hub_129615_cl_v0.8.2</a></p>
  </blockquote>
  
  <p>And here is the corresponding <a href="http://zlab-trackhub.umassmed.edu/yfu/insects/hub.txt" rel="nofollow noreferrer">hub.txt</a> file holding the metadata, and URLs to actual fasta, bigWig and bigBed files.</p>
  