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annotate test-data/funannotate_db/trained_species/fly/augustus/fly_weightmatrix.txt @ 0:998b719a94cb draft

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"planemo upload commit 9613152729099079c7465c3d5d42005ef22ca91e"
author iuc
date Thu, 26 Aug 2021 06:56:18 +0000
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1 #
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2 # This file contains a matrix used for weighing the training sequences
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3 # when given an input sequence. Let z = (da, dc, dg, dt) be the vector
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4 # containing the differences in the relative nucleotide frequencies of
998b719a94cb "planemo upload commit 9613152729099079c7465c3d5d42005ef22ca91e"
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5 # two sequences, the input sequence and a training sequence.
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6 # Then the training sequence has weight proportional to
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7 #
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8 # exp ( - z M z^t)
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9 #
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10 # with M being the matrix specified below.
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11 # If M is nonsingular, then (apart from a two normalizing factors) M
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12 # is the inverse of the covariance matrix of a multinormal
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13 # distribution - the kernel for the estimation.
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16 # this matrix is gc-content only, i.e.
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17 # weight = 10 * exp (-200 * (dc + dg))^2)
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18 # in particular weight <= 10
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19 0 0 0 0
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20 0 200 0 0
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21 0 0 200 0
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22 0 0 0 0
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