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comparison MatrixEQTL/demo/00Index @ 3:ae74f8fb3aef draft

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author jasonxu
date Fri, 12 Mar 2021 08:20:57 +0000
parents cd4c8e4a4b5b
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2:5fafba5359eb 3:ae74f8fb3aef
1 a.nocvrt Test that Matrix eQTL gives correct estimates for additive linear model. Homoscedastic case without covariates.
2 b.cvrt Test that Matrix eQTL gives correct estimates for additive linear model. Homoscedastic case with covariates.
3 c.weights Test that Matrix eQTL gives correct estimates for additive linear model. Heteroscedastic case with covariates.
4 d.ANOVA Test that Matrix eQTL gives correct estimates for ANOVA linear model with 3 groups. Heteroscedastic case with covariates.
5 d.ANOVA5 Test that Matrix eQTL gives correct estimates for ANOVA linear model with 5 groups. Heteroscedastic case with covariates.
6 e.interaction Test that Matrix eQTL gives correct estimates for linear model with genotype-covariate interaction. Heteroscedastic case with covariates.
7 p.hist Sample code for plotting histogram of p-values
8 q.qqplot Sample code for plotting QQ-plot of p-values
9 sample.all Sample code for eQTL analysis of the toy data set.
10 sample.cis Sample code for eQTL analysis of the toy data set with separate p-value thresholds and FDR estimation for cis- and trans-eQTLs.