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MariaNattestad / Assemblytics

Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.
http://assemblytics.com
MIT License
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What does diagonal red lines/dots mean in interactive plot? #36

Closed MehmetGoktay closed 4 years ago

MehmetGoktay commented 4 years ago

Hi Maria,

I have a hard time to interpret these red lines on interactive plot of Assemblytics.

Could you please tell me what does red dots/lines mean?

Best Regards, Mehmet ss

MariaNattestad commented 4 years ago

Black is unique alignments, red is repetitive. It means the red alignments are the ones filtered out during the unique anchor filtering step in Assemblytics and are not used to call variants. See the paper for more details on unique anchor filtering.