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  • ARDEN gives wrong sequence result

    Hi,

    I am using ARDEN to make artificial sequence from the original one which is 2.5 GB fasta file the result file is only 500 kb.

    This is the command I am using
    Code:
     python arden-create ./genomeTest/ /data/qdata/public/illumina-genomes/Zea_mays/Ensembl/AGPv2/Sequence/Bowtie2Index/genome.fa -d 21 -o 0 -n maize
    and print out in the terminal

    ########Some stats:########
    DNA length: 569630
    max substitutions: 27125
    #Balanced Mutations: 9206
    #hamming distance REF-ART 18412
    avg. distance: 30.9379752335
    ###########################

    any idea


    Edit:
    The answer to my question is ARDEN only works with one chromosome per time so i can not run it on the whole chromosomes "one file contains the whole genome" at once.
    Last edited by Medhat; 11-19-2013, 05:10 AM.

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