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Table 1 A summary of all the methods

From: Bootstrapping phylogenies inferred from rearrangement data

BGN, BGN*

Bootstrap by adding Gaussian Noise to the distance matrix.

BPC, BPC*

Bootstrap by Pairwise Comparisons: for each pair of sequences/genomes, sample

 

columns/adjacencies with replacement to compute distance.

BC, BC*

Classical Bootstrap: sample columns with replacement to obtain replicate; sample

 

adjacencies with replacement to compute distance matrix.

PJ, PJ*

Parsimony Jackknifing: choose each column with 1−1/e probablity to create replicate;

 

sample adjacencies with replacement and discard duplicates to compute distance matrix.

dJK, dJK*

d%-JackKnife: Omit d% of columns at random to produce replicate; omit d% of adjacencies

 

at random to compute distance matrix.

BP, BP*

Bootstrap by Perturbations: apply random mutations/rearrangements to get replicates.

JG*

Jackknife Genes: Marker based jackknifing method of Shi et al for rearrangement data.