Add Mapped reads track to IGV from Galaxy

  1. Install IGV (if not already installed)
  2. Launch IGV on your computer
  3. Check if the reference genome is available on the IGV instance
  4. Expand the BAM dataset with the mapped reads in the history
  5. Click on the local in display with IGV to load the reads into the IGV browser
  6. Switch to the IGV instance

    The mapped reads track should appear. Be sure that all files have the same genome ID

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{% snippet  topics/assembly/faqs/ %}