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  • Scaffold evaluation measures

    Hello,

    I want to compare the scaffolding of different assemblies and looking for good measures to evaluate the quality.
    1. N 50
    2. NG 50
    3. Blastx and evaluate how many align
    4. ...


    Was my previous approach, now I am seeking new ones. The biggest obstacle using other methods of evaluation often is the lack of a reference genome in my case.

    Any good suggestions ?

  • #2
    Have a look here: http://flxlexblog.wordpress.com/2013...athon2-debate/. More are appearing in the literature all the time...

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