Description Usage Arguments Details Value Examples

Compute matrix of individual-specific allele frequencies

1 |

`X` |
a matrix of SNP genotypes, i.e. an integer matrix of 0's, 1's, and 2's. Sparse matrices of class Matrix are not supported (yet). |

`LF` |
Matrix of logistic factors, with intercept. Pass in the
return value from |

`safety` |
optional boolean to bypass checks on the genotype matrices, which require a non-trivial amount of computation. |

Computes the matrix of individual-specific allele
frequencies, which has the same dimensions of the genotype matrix.
Be warned that this function could use a ton of memory, as the
return value is all doubles. It could be wise to pass only a
selection of the SNPs in your genotype matrix to get an idea for
memory usage. Use `gc`

to check memory usage!

Matrix of individual-specific allele frequencies.

1 2 | ```
LF = lfa(hgdp_subset, 4)
allele_freqs = af(hgdp_subset, LF)
``` |

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