Question: IGV empty tracks render in blue
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I'm using IGV to display CNV data, and for some tracks there are no CNVs.. but for some reason IGV renders these 'empty' tracks in blue..

Any suggestions on how to force IGV to color these in White?

Thanks

ADD COMMENTlinkeditmoderate 18 months ago roy.granit • 800 • updated 16 months ago Jim Robinson • 250
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Please show a screenshot and give some details on what file format you loaded into CNV.

How to add images to a Biostars post

ADD REPLYlinkeditmoderate 18 months ago
ATpoint
17k
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Here is the image..

Image

ADD REPLYlinkeditmoderate 18 months ago
roy.granit
• 800
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Are these segmented copy number files? How did you determine that there are no CNVs on the tracks with blue bars. The blue bar indicates a CN < 2.

ADD COMMENTlinkeditmoderate 16 months ago Jim Robinson • 250
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Yes, these are segmented CNVs detected using QDNAseq, I know there are no CNVs on the blue tracks by looking at the raw SEG files

ADD REPLYlinkeditmoderate 15 months ago
roy.granit
• 800

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