Merging three assembly results and elimination of duplication

Question

[Bioinfo]

Hello Biostar ! I hope you're doing well i did assembly using 3 type of sequencing , Hiseq Data MIseq Data and mixed (Hiseq Miseq ) , to improve the next results i'm thinking about merging the results of assembly of these three data ( Hiseq contigs , Miseq contigs and Mixed Hiseq Miseq contigs ) but i want to eliminate the duplication in the final file can you please tell me how to eliminate the duplication and if there's any way to be sure that final file ( that contain the results of the three contigs data without duplication ) is better than the previous files .

I hope i m clear Please tell me for any more clarification you want to know Thank you

Answer 1

[N15]

Try Mikado - a tool for merging assemblies

https://mikado.readthedocs.io/en/latest/Introduction.html

[Bioinfo]

Thank you for your reply