checkConvergence: checkConvergence

In magStra/nonparametricSummaryPSM: Nonparametric methods to find optimal weights to combine posterior similarity matrices

Description

checkConvergence

Usage

checkConvergence(PSMs)

Arguments

PSMs	3-dimensional array of PSMs, for each j PSMs[,,j] is the PSM of subsampled chain j, j = 1, ..., m

Value

results: list of length m-1 of results of processPSM function applied to the following subsets of PSMs: 1,2; 1,2,3; 1,2,3,4; ... 1,2,...,m

coph: vector of length m-1 of cophenetic correlation coefficients measuring how well the summary PSM obtained using the PY+PEAR method on the first k submatrices (k=1, ..., l) is described by a hierarchcial clustering tree for a summary PSM based on the first l subsampled chains

coph_DP: as coph, but for summary PSMs obtained by the DPM+PEAR method

distPY: vector of length m-2 of Frobenius (Euclidean) norm of distances between consecutive summary PSMs, that is summary PSMs obtained from chains 1,2,..,k,k+1 and 1,2,...k (PY+PEAR)

distDP: as distPY, but for DPM+PEAR method

Author(s)

Magdalena Strauss

magStra/nonparametricSummaryPSM documentation built on July 15, 2019, 5:59 p.m.