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Introduction

IGB already supports many species and genome versions, not just the species shown on the start screen. To check whether a genome is available in IGB, click the Current Sequence tab and use the Species and Genome Version menus to look for your genome of interest.

However, if your genome is not available, you can still use IGB. Here's how:

How to

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open a custom genome

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  1. Select File > Open Genome from File... (or click the DNA icon in the Toolbar.)
  2. Select a sequence file to use as the reference genome (fasta or 2bit format).
  3. Optional: Enter an IGB-friendly genome version name (optional)
  4. Optional: Enter the species name, including genus, species and variety as appropriate (optional)  
  5. click OK

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Viewing reference gene model annotations

If you have annotations for your genome, use File > Open File... to open and view them in IGB.

 

Note: The sequence names in your gene models file and reference sequence file need to match. If they don't, then you can create a chromosome synonyms filethat IGB will use to match names.

 

Adding a Common Name for a Species

When users operate the Species menu, a tooltip appears that lists the species common name. This information comes from a file named species.txt that is packaged with IGB application.

If you are distributing your own data sets via a QuickLoad site, you can also place your own custom species.txt file in the root directory of the QuickLoad site.

For more information, see: Sharing data for a custom genome not already part of IGB QuickLoad and Matching species and genome versions.

 

  1. Click OK and wait for the genome to load.
  2. Open data files as usual. And to view sequence, zoom in and click Load Sequence.

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