Mercurial > repos > iuc > funannotate_annotate
view test-data/funannotate_db/trained_species/fly/augustus/fly_weightmatrix.txt @ 11:9c15ca7e764e draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 9e3708d04faea0f1be4ea8918e859d6f2c7eb31d
author | iuc |
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date | Wed, 26 Jun 2024 09:41:52 +0000 |
parents | a5baa4ff168d |
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# # This file contains a matrix used for weighing the training sequences # when given an input sequence. Let z = (da, dc, dg, dt) be the vector # containing the differences in the relative nucleotide frequencies of # two sequences, the input sequence and a training sequence. # Then the training sequence has weight proportional to # # exp ( - z M z^t) # # with M being the matrix specified below. # If M is nonsingular, then (apart from a two normalizing factors) M # is the inverse of the covariance matrix of a multinormal # distribution - the kernel for the estimation. # this matrix is gc-content only, i.e. # weight = 10 * exp (-200 * (dc + dg))^2) # in particular weight <= 10 0 0 0 0 0 200 0 0 0 0 200 0 0 0 0 0