IGB User's Guide
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For files loaded from URL or from the local computer, just drag and drop into the IGB interface; the file will immediately appear in the Choose Load Mode list. Alternatively, use the File > Open File.. or Open URL... to find and load the file(s) you want. Be sure to set the species and genome at the bottom of the file selection window.

Choose Load Mode

IGB is capable of loading and displaying whole genomes, whole chromosomes or just portions of a data file, depending on the file type. Therefore, although there are many load options, not every file type can be loaded the same way. There is always the option of Don't Load, which will simply not load the individual file but will maintain it in the list.

  • Whole Genome is primarily used with sequence files
  • Whole Chromosome is the standard load mode for most file types. We generally recommend selecting Whole Chromosome, unless it is a very large file.
  • Region in View tells IGB to load only the region in view. For large files, such as BAM or other short read sequence files, we strongly recommend that you zoom into a small region of interest, usually about <100Kb depending on your read density, and then refresh the data to see the data within this region. This is easily accomplished if the reference genome for your species is already loaded (IGB automatically loads the reference sequences for most model organisms).
  • Autoload is a new option in IGB6.5. This is an option for BAM files, which will allow IGB to automatically load the data in view if the view is zoomed below the Autoload threshold (this is marked with a white arrow in the zoom bar). Image Added
  • Choose Load Mode panel (see below, in purple). We have made partial loading (Region in View) available to BNIB and 2bit files from Quickload servers.

Partially Loaded Tracks

You might partially load a track (Region in View) and then zoom out to show a greater region of the data set. IGB will show gray in the area of any track that is not fully loaded. For example, the TAIR9 ALL track is only partially loaded, whereas the entire TAIR9 mRNA track is fully loaded in the range of view.