Read Orientations in IGV view of Bisulfite Sequencing
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6.9 years ago
DVA ▴ 610

I'm kinda new to the bisulfite mode feature in IGV - I wonder if anyone here knows what determines the gray (5'-3') and green (3'-5') orientations when load a sam file to IGV. It does not seems to be explained on their official website. Is the orientation still fully determined by the flag number, like in normal sequencing cases please? 

Thank you!

igv bisulfite sequencing • 1.9k views
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Entering edit mode
6.7 years ago
vassialk ▴ 200

Try other viewers like Ugene, Galaxy, CLC, GeneousPro

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