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  • building consensus with multiple samples

    Hi,

    I have 4 samples with Illumina reads which I would like to build a consensus out of. The 4 samples are of the same species and there is a reference for it. I am looking into using Velvet Columbus, but I was wondering, is there a problem with pooling my reads together and proceeding with one assembly?

    My aim is to call SNPs using this consensus.

    Much thanks.

  • #2
    Going by an educated guess, you should pool them together if all are from the same library.

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    • #3
      Yes, they're all Illumina reads. I was guessing it would be alright too if they're the same species, I have two parents and two progeny. I was just wondering if the presence of SNVs will affect the de novo assembly process.

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