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  • RDP classifier - training set: how do I create?

    Hi there,

    I've nasal and genital microbiome: 16S rRNA, Illumina 300BP, paired end data. For various reasons green-genes, and silva database don't solve our project's purpose, and thus we don't use them.

    I'd like to create in-house training set. I've list of species which we're interested in.

    How do I create RDP's training set for my species? I looked at files:

    genus_wordConditionalProbList.txt
    rRNAClassifier.properties
    bergeyTrainingTree.xml
    logWordPrior.txt

    these files make almost no sense to me, and am clueless on how to add new sequence, classification/taxonomy to it.

    Any guidance would be great.
    Bioinformaticscally calm

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