examine_edge_optimisation_matrix

Not really a matrix but two (should be an output of
<code><a rd-options="" href="/link/build_edge_optimisation_matrix?package=admixturegraph&version=1.0.2" data-mini-rdoc="admixturegraph::build_edge_optimisation_matrix">build_edge_optimisation_matrix</a></code>).

matrix

Calulating the rank with <code><a rd-options="" href="/link/qr.solve?package=admixturegraph&version=1.0.2" data-mini-rdoc="admixturegraph::qr.solve">qr.solve</a></code> sometimes crashes.
Default $10^(-8)$.


If the essential number of equations is not higher than the essential number of
edge variables, the quality of edge optimisation will not depend on the admix
variables (expect possibly in isolated special cases where the quality can be worse),
and a complaint will be given.
Note: The admix variable not being fitted does not mean that there is no evidence of
an admix event! Isolated values of the admix variables, possibly $0$ or $1$,
might give significantly worse fit than a typical value (but not the other way around).


Implements tools for building and visualising admixture graphs
and for extracting equations from them. These equations can be compared to f-
statistics obtained from data to test the consistency of a graph against data --
for example by comparing the sign of f_4-statistics with the signs predicted by
the graph -- and graph parameters (edge lengths and admixture proportions) can
be fitted to observed statistics.

Thomas Mailund

admixturegraph

Admixture Graph Manipulation and Fitting

examine_edge_optimisation_matrix function

Not really a matrix but two (should be an output of
<code><a rd-options='' href='build_edge_optimisation_matrix'>build_edge_optimisation_matrix</a></code>).

Calulating the rank with <code><a rd-options='' href='qr.solve'>qr.solve</a></code> sometimes crashes.
Default $10^(-8)$.

examine_edge_optimisation_matrix: Examine the edge optimisation matrix to detect unfitted admix variables.

Description

Usage

Arguments

Value

See Also