Mercurial > repos > iuc > hyphy_strike_ambigs

annotate test-data/gard-out1.json @ 1:4e3212e05a8f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit e22821f51ae326b3696a9456cbc44f9982512a52"
author iuc
date Tue, 20 Apr 2021 19:51:21 +0000
parents 7c86ceaf523c
children 4bf743518e41
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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1 {
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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2 "analysis":{
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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3 "authors":"Sergei L Kosakovsky Pond",
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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4 "citation":"**Automated Phylogenetic Detection of Recombination Using a Genetic Algorithm**, _Mol Biol Evol 23(10), 1891–1901",
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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5 "contact":"spond@temple.edu",
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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6 "info":"GARD : Genetic Algorithms for Recombination Detection. Implements a heuristic\n approach to screening alignments of sequences for recombination, by using the CHC genetic algorithm to search for phylogenetic\n incongruence among different partitions of the data. The number of partitions is determined using a step-up procedure, while the\n placement of breakpoints is searched for with the GA. The best fitting model (based on c-AIC) is returned; and additional post-hoc\n tests run to distinguish topological incongruence from rate-variation.",
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7 "requirements":"A sequence alignment.",
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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8 "version":"0.1"
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9 },
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10 "baselineScore":8884.998566352424,
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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11 "breakpointData":{
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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61 "file name":"/Users/ryanvelazquez/Documents/galaxy_items/tools-iuc/tools/hyphy/./test-data/gard-in1.fa",
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diff changeset
62 "number of sequences":21,
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
iuc
parents:
diff changeset
63 "number of sites":1698,
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
iuc
parents:
diff changeset
64 "partition count":1
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iuc
parents:
diff changeset
65 },
7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
iuc
parents:
diff changeset
66 "potentialBreakpoints":244,
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iuc
parents:
diff changeset
67 "singleTreeAICc":8952.770360670584,
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iuc
parents:
diff changeset
68 "siteBreakPointSupport":{
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iuc
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diff changeset
69 "1005":3.828454313051127e-38,
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
107 "1384":1.557822413676087e-33,
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iuc
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diff changeset
108 "1397":1.068642031138833e-35,
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iuc
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diff changeset
109 "1412":6.831611952947673e-38,
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iuc
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diff changeset
110 "1418":1.522690852126543e-39,
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iuc
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diff changeset
111 "1430":7.96352395927298e-40,
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iuc
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diff changeset
112 "1433":1.156793517215151e-37,
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iuc
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diff changeset
113 "1436":5.651778976453802e-38,
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iuc
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diff changeset
114 "144":8.552230281908163e-07,
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iuc
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diff changeset
115 "1442":2.016530452321108e-37,
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iuc
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diff changeset
116 "1454":2.386567702095966e-36,
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iuc
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diff changeset
117 "1463":9.043007916183422e-39,
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iuc
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diff changeset
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iuc
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diff changeset
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iuc
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diff changeset
120 "1481":2.661546849207671e-37,
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iuc
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diff changeset
121 "149":1.304259029589306e-05,
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iuc
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diff changeset
122 "1495":4.622941797307467e-44,
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iuc
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diff changeset
123 "1496":4.226996151791482e-44,
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iuc
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diff changeset
124 "1499":2.730615034063184e-44,
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iuc
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diff changeset
125 "151":1.790975065283929e-08,
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iuc
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diff changeset
126 "1515":4.749012537570416e-45,
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iuc
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diff changeset
127 "1516":1.058313486583168e-45,
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iuc
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diff changeset
128 "1519":3.729412022561233e-46,
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iuc
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129 "1520":2.407045351616036e-46,
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iuc
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130 "1521":1.689577693820857e-46,
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iuc
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iuc
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132 "1524":1.741238756038766e-46,
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iuc
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133 "1526":3.855324589536673e-46,
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iuc
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134 "1537":2.062102436942228e-46,
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iuc
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diff changeset
135 "1538":3.417841619348906e-47,
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iuc
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136 "1539":3.047730711305713e-47,
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iuc
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diff changeset
137 "1544":1.7639941893744e-47,
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iuc
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diff changeset
138 "155":1.315748190900565e-29,
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iuc
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diff changeset
139 "1556":1.89572005098281e-47,
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iuc
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diff changeset
140 "1580":5.505818788734445e-49,
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iuc
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diff changeset
141 "1585":1.614020745294316e-49,
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iuc
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diff changeset
142 "159":2.814745521856487e-30,
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iuc
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diff changeset
143 "161":5.278607654454491e-08,
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iuc
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diff changeset
144 "1610":6.983674612335563e-50,
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iuc
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diff changeset
145 "1613":1.219959907173526e-49,
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iuc
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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7c86ceaf523c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
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