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abiswas-odu / Disco

Multi-threaded Distributed Memory Overlap-Layout-Consensus (OLC) Metagenome Assembler
GNU General Public License v3.0
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Question: Is it possible to merge contigs with Disco? #3

Open TimSkvortsov opened 7 years ago

TimSkvortsov commented 7 years ago

Hi, I was wondering whether Disco as an OLC assembler could be used to merge contigs assembled by other assemblers (IDBA, SPAdes)? For example, MeGAMerge uses Newbler and minimus2 to do that. I also know that CAP3 can do that, but it is very slow. I did a couple of tests myself, trying to merge contigs with Disco, but the results were inconclusive, it worked for one of my test data sets, but not for three others. Are there any limitations regarding the length of sequences that Disco can assemble? Thank you.

jiarong commented 7 years ago

I have the same question. My concern is that those long contigs with no overlap with others may get discarded during graph building step.