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  • plink marker error

    Hi,
    I keep getting the following error message from plink:

    ERROR: Could not place marker for left window edge

    Does anyone know what does this error means?

    I am using the options --from-bp and --to-bp

    Thanks in advance
    Last edited by roll; 08-08-2013, 03:02 AM.

  • #2
    Originally posted by roll View Post
    Hi,
    I keep getting the following error message from plink:

    ERROR: Could not place marker for left window edge

    Does anyone know what does this error means?

    I am using the options --from-bp and --to-bp

    Thanks in advance
    It means it could not find your --from-bp marker name. Double-check your spelling and whether you have the correct files.
    Last edited by chrchang; 08-08-2013, 03:16 PM. Reason: forgot 'not'

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    • #3
      Originally posted by chrchang View Post
      It means it could not find your --from-bp marker name. Double-check your spelling and whether you have the correct files.
      Everything seems fine. I have a center point and i would like to get the association results within a certain window. So i added 100bp to get the --from-bp parameter and subtracted 100bp to get the --to-bp parameter. Do you think there is something specifically wrong at that position? if yes, how can i check that position specifically?

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      • #4
        Oops, my last response confused --from with --from-bp.

        Anyway, the only way I've been able to get the "left window edge" error message is by providing --from-bp with a position value larger than the last actual bp position on the chromosome. So, two things to check:

        - Are you actually using --from-kb or --from-mb when you meant --from-bp?
        - Is your .bim file missing bp positions? Check the fourth column.

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