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  • corthay
    started a topic SOAPdenovo correction module.

    SOAPdenovo correction module.

    Hi all,

    I have a question about the parameters of SOAPdenovo correction module.
    I would like to specify the maximum number of kmer frequence cut off. I've checked the usage of corrector and I thought I have to use "-e" option. But the default value of "-k" is the same with "-e" default value, which start of kmer frequence cutoff. Then, I am confused.

    I did ask the developer about this before but I could not get the answer yet.
    If anyone has information, please let me knows what does they mean.

    Thanks,
    Corthay

    Usage:
    Corrector [options]
    -i <string> input a read file list
    -r <string> input kmer frequence file name
    -n <int> kmer frequency along with index?: 0: no, 1: yes. [default 0]
    -k <int> start of kmer frequence cutoff [default 5]
    -e <int> end of kmer frequence cutoff [default 5]
    -d <int> maximum error bases allowed [default 2]
    -s <int> seed length [default 17]
    -t <int> thread number [default 4]
    -f <int> file format: 1: fq, 2: fa. [default 1]
    -h -? help

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