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  • #1

    EdgeR - trim DGEList by data feature

    Greetings!

    I am using EdgeR to perform analysis on a large dataset. For some of my questions, I am interested in looking only at a subset of my data, based on a specific field in the dataset. Is it possible to filter out the unwanted samples based on the data in a specific group?

    For example
    In the below example, I would like to include only samples from location L1

    My DGEList

    $counts
    N1 N2 N3...
    0 4 6 8
    1 5 2 1
    2 3 7 9
    3 0 0 1
    ...

    $samples
    group lib.size ...
    N1 L1 13661
    N2 L2 14228
    N3 L1 20557
    ...

    Any assistance is appreciated!
    Tags: edger, subsetting
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