Description Usage Arguments Value References Examples

View source: R/eff_nbr_tests.R

Calculates the effective number of tests performed in a GWAS, given the LD structure among the SNPs. SNPs that are highly correlated are not counted twice.

1 | ```
eff_nbr_tests(mat, cor.true = FALSE)
``` |

`mat` |
matrix, either individual by SNPs (n x p) matrix, or correlation matrix between SNPs |

`cor.true` |
indicates if option mat is a correlation matrix or not |

`zhc.correction`

number of effective tests

Implemented from https://www.ncbi.nlm.nih.gov/pubmed/18271029

1 2 3 | ```
dat.sim <- data.frame(g = rnorm(100)) %>% dplyr::mutate(g2 = g*2)
eff_nbr_tests(diag(10), cor.true = TRUE) ## 10, because all are independent
eff_nbr_tests(dat.sim, cor.true = FALSE)
``` |

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