Mercurial > repos > iuc > funannotate_annotate
comparison test-data/funannotate_db/trained_species/fly/augustus/fly_weightmatrix.txt @ 0:a5baa4ff168d draft
"planemo upload commit 87560553f1dbbd3e0ab7d7157fa5a7f32f61dca1"
author | iuc |
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date | Mon, 04 Oct 2021 19:39:38 +0000 |
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1 # | |
2 # This file contains a matrix used for weighing the training sequences | |
3 # when given an input sequence. Let z = (da, dc, dg, dt) be the vector | |
4 # containing the differences in the relative nucleotide frequencies of | |
5 # two sequences, the input sequence and a training sequence. | |
6 # Then the training sequence has weight proportional to | |
7 # | |
8 # exp ( - z M z^t) | |
9 # | |
10 # with M being the matrix specified below. | |
11 # If M is nonsingular, then (apart from a two normalizing factors) M | |
12 # is the inverse of the covariance matrix of a multinormal | |
13 # distribution - the kernel for the estimation. | |
14 | |
15 | |
16 # this matrix is gc-content only, i.e. | |
17 # weight = 10 * exp (-200 * (dc + dg))^2) | |
18 # in particular weight <= 10 | |
19 0 0 0 0 | |
20 0 200 0 0 | |
21 0 0 200 0 | |
22 0 0 0 0 | |
23 |