Multi-allelic Positional Burrows-Wheeler Transform (mPBWT)

Ardalan Naseri, Degui Zhi, Shaojie Zhang

1. Installation

The source code (in C++) can be downloaded from here. To compile the code go to the directory Release and type: make

2. Usage information

    Usage: ./M-PBWT <option(s)>

    Options:


    -i <INPUT FILE>           Input file path in MACS format
    -t <NUMBER OF ALLELES>    Total number of possible alleles in the panel (< 11)
    -m <NUMBER OF HAPLOTYPES> Number of haplotypes in the panel
    -n <NUMBER OF SITES>      Number of variant sites in the panel
    -s                        Find all set max matches 
    -l <LENGTH>               Find all matches larger than L variant sites
Required:

    <INPUT FILE>  <NUMBER OF ALLELES>  <NUMBER OF SITES> <NUMBER OF HAPLOTYPES> 
    <LENGTH> required if you are looking for long matches.