plink not phenotype present

Julong Wei

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Mar 14, 2017, 12:44:57 AM3/14/17

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Hi,

When I used plink for case/control analysis in the logistic, there are following error,

Note: No phenotypes present.

Warning: Skipping --logistic since less than two phenotypes are present.

How to tackle this issue?

The following is my phenotype file.

Thank you very much!

Rice_sub448.phe

Julong Wei

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Mar 14, 2017, 1:25:58 AM3/14/17

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I have tacked this issue when using plink.1.07 version.

Probably I guess the unstable for newest version, 1.9.

Christopher Chang

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Mar 14, 2017, 11:26:59 AM3/14/17

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Hi,

Can you post the .log file for the plink 1.9 run? Thanks.

Julong Wei

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Mar 14, 2017, 5:55:44 PM3/14/17

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Hi,

The attachment is .log file for the plink 1.9.

Best,

Julong

Rice_448.log

Christopher Chang

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Mar 14, 2017, 6:01:15 PM3/14/17

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This .log file is for a different kind of analysis (--fst + --within, not --logistic).

Julong Wei

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Mar 15, 2017, 12:01:25 AM3/15/17

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Sorry for that.

Now is the log file for logistic.

Rice_448.log

Christopher Chang

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Mar 15, 2017, 12:15:55 AM3/15/17

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Try adding "--allow-no-sex" to your command line.

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