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genome circular issue about unicycler?

Open wanjinhu opened this issue 4 years ago • 1 comments

(1) What method does unicycler use to determine the “circular” of contigs? (2) Is it only for the contigs to be judged separately?

For example, I use unicycler to assemble 5 contigs (1, 2, 3, 4, 5), and contig 2 and 3 are judged to form a circle (circular=true). Contig1, 4, and 5 are not judged as circle. Does unicycler have measures to further determine the remaining contigs that are not circulared? thanks @rrwick

wanjinhu avatar Jan 20 '21 05:01 wanjinhu

Also, I would like to know the status "complete" in the'Bridged assembly graph' section, does it mean that contig is "circular"?

How many reads of the start-end of the contig sequence are overlaped with each other to indicate “circular”?

what's depth is good?

thanks a lot, looking forward to your reply.

wanjinhu avatar Jan 21 '21 02:01 wanjinhu