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AmpliconSuite / AmpliconClassifier

Classify output of AmpliconArchitect to detect types of focal amplifications present
BSD 2-Clause "Simplified" License
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what's mean of No amp/Invalid in amplicon_decomposition_class #21

Open aw2222222222 opened 1 month ago

aw2222222222 commented 1 month ago

what's mean of No amp/Invalid in amplicon_decomposition_class

aw2222222222 commented 1 month ago

does it's indicate detected amplicon is false positive?

jluebeck commented 1 month ago

Hi, thanks for this question -

AA takes seed regions as input where focal amplifications may exist. If, after studying that region of the genome, it is found that the copy number is not sufficiently high or the region appears to be some sort of low-complexity/repetitive element that is not a true focal amplification, then it will be marked as a "No amp/Invalid" label.

Please let me know if you have additional questions about the classifications.

Thanks, Jens