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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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Confirmation parameters of nucmer #47

Closed qingyun-mei closed 7 months ago

qingyun-mei commented 2 years ago

Hello! When I run nucmer step, I used the parameter：nucmer --mum -c 90 -l 40 ref.fa contig.fa. Then I filter the alignments with delta-filter -1 -q -r. The parameter I used was different from the web (http://assemblytics.com/). Can I use the filter delta file to detect SV by Assemblytics?

Thanks!