Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix Operations
Main function for fast eQTL analysis in MatrixEQTL package
Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix Operations
Sample code for cis/trans-eQTL analysis with Matrix eQTL
Constant for Matrix_eQTL_engine.
Constant for Matrix_eQTL_engine.
Constant for Matrix_eQTL_engine.
Plot histogram or QQ-plot of all p-values
Class SlicedData for storing large matrices
Matrix eQTL is designed for fast eQTL analysis on large datasets. Matrix eQTL can test for association between genotype and gene expression using linear regression with either additive or ANOVA genotype effects. The models can include covariates to account for factors as population stratification, gender, and clinical variables. It also supports models with heteroscedastic and/or correlated errors, false discovery rate estimation and separate treatment of local (cis) and distant (trans) eQTLs. For more details see Shabalin (2012) <doi:10.1093/bioinformatics/bts163>.
Useful links