Mercurial > repos > iuc > funannotate_annotate
annotate 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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"planemo upload commit 87560553f1dbbd3e0ab7d7157fa5a7f32f61dca1"
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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 |
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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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iuc
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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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14 |
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15 |
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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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23 |