Mercurial > repos > iuc > funannotate_predict
comparison test-data/funannotate_db/trained_species/fly/augustus/fly_metapars.utr.cfg @ 0:40b87aef5241 draft
"planemo upload commit 9613152729099079c7465c3d5d42005ef22ca91e"
author | iuc |
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date | Thu, 26 Aug 2021 06:55:33 +0000 |
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1 # This file contains the list of meta parameters for the Untranslated Regions (UTRs), which are subject to optimization. | |
2 # All other parameters are chosen as given in the species parameter file. The order | |
3 # of the parameters determines the order in the optimization process. | |
4 # Basically, different values for these meta parameters are tried out and the ones | |
5 # giving best performance in a cross-validation on the training set are chosen. | |
6 # For each parameter the range of possible values is specified after the parameter | |
7 # name and at least one white space. | |
8 # 3 cases are possible for the range: | |
9 # - an explicit list is given, e.g. protein "on" "off" | |
10 # - it is an integer range, e.g. window_size "1"-"5" | |
11 # - it is a range of floating point numbers, e.g. pseudocount "0.3"_"1.8" | |
12 # | |
13 # | |
14 # Mario Stanke, 9.5.2008 | |
15 # | |
16 | |
17 /UtrModel/prob_polya "0.0"_"1.0" | |
18 /UtrModel/d_polya_cleavage_min "6"-"14" | |
19 /UtrModel/d_polya_cleavage_max "17"-"27" | |
20 /UtrModel/tss_start "0"-"12" | |
21 /UtrModel/tss_end "0"-"8" | |
22 /UtrModel/tts_motif_memory "0"-"2" | |
23 /UtrModel/utr5patternweight "0.1"_"1.0" | |
24 /UtrModel/utr3patternweight "0.1"_"1.0" | |
25 /UtrModel/patpseudocount "1"_"3" | |
26 /UtrModel/tssup_k "0"-"2" | |
27 /UtrModel/slope_of_bandwidth "0.2"_"0.4" | |
28 /UtrModel/minwindowcount "1"-"4" | |
29 #/UtrModel/k "2"-"4" | |
30 |