Performing Logistic Regression On Plink
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7.8 years ago

Using plink, I have been asked to perform logistic regression, calculating 95% confidence intervals, using covariate and identify the value for lambda. The covariate is supplied as a .txt file.

I have read some papers, mainly "Basic statistical analysis in genetic case-control studies” (Clarke et al. 2011, Nature Protocols 6: 121-33),but I am not sure which input to follow.

Thanks

plink • 3.8k views
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Is plink manual --logistic not helpful?

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How will this help me identify the value for lambda?

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7.8 years ago
zx8754 10k

In the cited paper, they mention an inflation factor λ, if this is what you after then use --adjust together with --logistic option and it will create a log file with lambda value. Then this value can be used with output modifiers command --lambda.

Note: Add --ci 0.95 option to get 95% confidence intervals.

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