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  • sirmark
    replied
    ok thanks! I'll see it!

    Leave a comment:


  • Rhizosis
    replied
    Do look at the application mPileUp.

    Leave a comment:


  • sirmark
    started a topic tool for counting A T G C in a bam

    tool for counting A T G C in a bam

    Is there a tool to make counting of base in each position of reference genome ?

    Example:
    1 2 3 4 5 6 7
    A C T T C G A :reference
    A C G T A C A :read1
    A A T T G C A :read2
    A C G T G G A :read3
    A C T T G A A :read4
    A C A A G T A :read5

    the output of the tool that I'm searching :
    5A 0C 0T 0G: position1
    1A 4C 0T 0G: position2
    1A 0C 2T 2G: position3
    1A 0C 4T 0G: position4
    1A 0C 0T 4G: position5
    1A 2C 1T 1G: position6
    5A 0C 0T 0G: position7

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