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  • Generating mutations with WGSim

    I've just started using WGSim, and I'm trying to mutate the data a specified amount (eg: 300 bp using only simple point mutations) of an entire genome, and then get reads for it.

    Apparently wgsim_mut_diref is supposed to be the way to do this, but the documentation is pretty minimalistic, and I am confused as to what exactly they are looking for as arguments:

    void wgsim_mut_diref(const kseq_t *ks, int is_hap, mutseq_t *hap1, mutseq_t *hap2)

    From my understanding, the arguments should be: my_input_file, 0 or 1, output_file_1, output_file_2. Where is the argument for mutation rate/base pairs mutated?

    Here's the page with the actual source code, any help would be appreciated.

    Reads simulator. Contribute to lh3/wgsim development by creating an account on GitHub.


    Best,
    David

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