Megahit assembly
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2.4 years ago
bala • 0

Hi everyone I am doing Metagenome assembly using megahit, I have tried with different parameters available in megahit with the same file. I want to know which is the best parameter, here I have attached the metaquast result for those files. enter image description here

1) final.contigs: - K-list 21,29,39 -141 parameters without unpaired end from trimmomatic 2) Un_defult_final.contigs: -K-list 21,29,39 -141 parameters with unpaired end from trimmomatic 3) WUn_defulat_final.contigs: - default parameters with unpaired end from trimmomatic WU_ML_final.contigs
4) WU_ML_m5final.contigs: -with --preset meta-large 5) WU_MS_final.contigs: -with --preset meta-sensitive.

can someone explain which is the best assembly for binnig?

Thank you

Megahit • 628 views
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