What do contig types 'junction' and 'breakpoint' mean?

Nextomics / NextDenovo

Fast and accurate de novo assembler for long reads

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What do contig types 'junction' and 'breakpoint' mean? #80

Closed zhangrengang closed 3 years ago

zhangrengang commented 3 years ago

Question or Expected behavior In the final nd.asm.fasta, there are four types (or more?): linear, loop, junction and breakpoint. Among these, linear and loop is easy to understand, but how to understand junction and breakpoint?

NextDenovo 2.3.0

moold commented 3 years ago

Hi, breakpoint means a node/read without outdegree (a path can not be extended), junction means a node/read with >1 indegree and >1 outdegree (a path does not know how to be extended).