Metagenome assembly improvement/reassembly

Metagenome assembly improvement/reassembly


Hi Biostar Community!

Can you suggest a workflow, program, or something to me, which can improve the metagenomics assembly with short reads?
I have contigs assembled by Megahit. If I mapped back the reads to the contigs the average mapping percent is around 70-75%. I wondering how can I improve it with the remaining unused reads. I googled for it and I found MetaMIC and MetaCarvel which can be used to reference-free misassembly identification and correction. Although it does not work for me. Anybody can suggest to me another program that can be used for similar purposes and can be found on the site?

PS.: I also have RNA data. Can it be used to improve metagenomics assembly too? Like: Rascaf





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