GMOD Online Training 2014/WebApollo Tutorial

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Using WebApollo

WebApollo is a web-based application, so the only requirement to use it is a web browser. It has been tested with Chrome, Firefox, and Safari. It has not been tested with Internet Explorer.

A WebApollo demo with the Pythium data has been set up on the virtual machine. We'll use the demo to view WebApollo's functionality.

Point your browser to

WebApollo login page

The user name and password are both demo.

WebApollo main options
WebApollo reference sequence selection

We only have one contig to work with. Click on the scf1117875582023 link.

  • Annotation track
  • Add evidence tracks (maker, snap_masked, blastn, blastx, est2genome, protein2genome, BAM alignments)
  • Moving around the contig
  • Go to region scf1117875582023:629476..633770
  • Selection
    • Edge matching
  • Create annotation
    • Drag-n-drop
  • Delete exon (notice the change in CDS)
  • Add exon
  • Non-canonical splice sites (GT / AG)
  • Zoom to base
  • DNA track
    • Highlighting
    • 6-frame translation
  • DNA sequence insertion, deletion, substitution
  • Zoom back out
  • Change exon boundaries
  • Merge (exons, transcripts)
  • Split (exons, transcripts)
  • Make intron
  • Duplicate
  • Set translation start
  • Realtime client updating
  • History
  • Information editor
  • Get sequence
  • Sequence searching