Mercurial > repos > iuc > hyphy_summary

annotate test-data/summary/ORF6.FADE.json @ 7:f3e408cc2546 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 821e0f3e4546bc55e093ab63bd9f9b57f2bf772d
author iuc
date Thu, 18 Aug 2022 13:50:20 +0000
parents f304c108aa1f
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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iuc
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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iuc
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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iuc
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iuc
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iuc
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diff changeset
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iuc
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iuc
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1301 [1.835938310083184, 0.4775809241570471, 0.9109610017324813, 0.5727045926586642]
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iuc
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1302 ]
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
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1303 }
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
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1304 },
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1305 "headers": [
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iuc
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diff changeset
1306 ["rate", "Mean posterior relative rate at a site"],
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iuc
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1307 ["bias", "Mean posterior bias parameter at a site"],
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iuc
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1308 ["Prob[bias>0]", "Posterior probability of substitution bias"],
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iuc
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diff changeset
1309 ["BayesFactor[bias>0]", "Empiricial Bayes Factor for substitution bias"]
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
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1310 ]
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1311 },
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1312 "analysis":{
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1313 "authors":"Sergei L Kosakovsky Pond",
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
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1314 "citation":"TBD",
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1315 "contact":"spond@temple.edu",
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
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diff changeset
1316 "info":"FADE (FUBAR Approach to Directional Evolution) is a fast method to test whether or not a subset of sites in a protein alignment\n evolve towards a particular residue along a subset of branches at accelerated rates compared to reference model.\n FADE uses a random effects model and latent Dirichlet allocation (LDA) - inspired approximation methods to allocate sites to rate classes.",
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iuc
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diff changeset
1317 "requirements":"A protein alignment and a **rooted** phylogenetic tree (optionally annotated with {})",
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1318 "version":"0.2"
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1319 },
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1320 "branch attributes":{
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1321 "0":{
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1322 "EPI_ISL_1181694_HCOV_19_USA_DE_DHSS_B1064373_2021":{
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1323 "GTR":0,
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1324 "original name":"EPI_ISL_1181694/HCOV-19/USA/DE-DHSS-B1064373/2021"
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1325 },
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1326 "EPI_ISL_1284652_HCOV_19_GERMANY_SN_RKI_I_038291_2021":{
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1327 "GTR":0,
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1328 "original name":"EPI_ISL_1284652/HCOV-19/GERMANY/SN-RKI-I-038291/2021"
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1329 },
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1330 "EPI_ISL_1442952_HCOV_19_SINGAPORE_321_2021":{
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1934 "GB_MW578246_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MD_MDH_0808_2021_SEGMENT_NULL_HOST_HUMAN":{
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iuc
parents:
diff changeset
1935 "GTR":0,
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iuc
parents:
diff changeset
1936 "original name":"GB_MW578246_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MD_MDH_0808_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1937 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1938 "GB_MW583187_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_OK_CDC_STM_000003021_2021_SEGMENT_NULL_HOST_HUMAN":{
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iuc
parents:
diff changeset
1939 "GTR":0,
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iuc
parents:
diff changeset
1940 "original name":"GB_MW583187_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_OK_CDC_STM_000003021_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1941 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1942 "GB_MW583265_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CA_CDC_STM_000001669_2021_SEGMENT_NULL_HOST_HUMAN":{
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iuc
parents:
diff changeset
1943 "GTR":0.02122042868986439,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1944 "original name":"GB_MW583265_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CA_CDC_STM_000001669_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1945 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1946 "GB_MW585898_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_CDC_STM_000003612_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1947 "GTR":0.02177267534968197,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1948 "original name":"GB_MW585898_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_CDC_STM_000003612_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1949 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1950 "GB_MW586184_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000005891_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1951 "GTR":0,
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iuc
parents:
diff changeset
1952 "original name":"GB_MW586184_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000005891_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1953 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1954 "GB_MW586256_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000005477_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
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1955 "GTR":0.0213052439691005,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1956 "original name":"GB_MW586256_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000005477_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1957 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1958 "GB_MW586274_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_TX_CDC_STM_000005611_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1959 "GTR":0,
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iuc
parents:
diff changeset
1960 "original name":"GB_MW586274_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_TX_CDC_STM_000005611_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1961 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1962 "GB_MW586385_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_LA_CDC_STM_000005076_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1963 "GTR":0.02121636359237914,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1964 "original name":"GB_MW586385_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_LA_CDC_STM_000005076_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1965 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1966 "GB_MW586419_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_IA_CDC_STM_000005050_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1967 "GTR":0,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1968 "original name":"GB_MW586419_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_IA_CDC_STM_000005050_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1969 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1970 "GB_MW586670_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000003618_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1971 "GTR":0.02121890219364495,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1972 "original name":"GB_MW586670_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FL_CDC_STM_000003618_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1973 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1974 "GB_MW586700_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CA_QDX_4173_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1975 "GTR":0.02101002190205874,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1976 "original name":"GB_MW586700_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CA_QDX_4173_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1977 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1978 "GB_MW586846_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_NY_QDX_4256_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1979 "GTR":0.02122337052825341,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1980 "original name":"GB_MW586846_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_NY_QDX_4256_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1981 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1982 "GB_MW586849_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_PA_QDX_4292_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1983 "GTR":0.02763798357947539,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1984 "original name":"GB_MW586849_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_PA_QDX_4292_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1985 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1986 "GB_MW592637_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_MASPHL_01774_2021_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1987 "GTR":0.02130721832965677,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1988 "original name":"GB_MW592637_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_MASPHL_01774_2021_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1989 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1990 "GB_MW592782_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MN_MDH_2311_2020_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1991 "GTR":0.1786186183208891,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1992 "original name":"GB_MW592782_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MN_MDH_2311_2020_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1993 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1994 "GB_MW593179_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_1171_2020_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1995 "GTR":0,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1996 "original name":"GB_MW593179_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_1171_2020_SEGMENT_NULL_HOST_HUMAN"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1997 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1998 "GB_MW593378_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_8518_2020_SEGMENT_NULL_HOST_HUMAN":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
1999 "GTR":0.02155907100505753,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2000 "original name":"GB_MW593378_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_8518_2020_SEGMENT_NULL_HOST_HUMAN"
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2001 },
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2002 "GB_MW593611_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_7938_2020_SEGMENT_NULL_HOST_HUMAN":{
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2003 "GTR":0,
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diff changeset
2004 "original name":"GB_MW593611_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_7938_2020_SEGMENT_NULL_HOST_HUMAN"
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2005 },
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2006 "GB_MW593708_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_4325_2020_SEGMENT_NULL_HOST_HUMAN":{
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2008 "original name":"GB_MW593708_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_FHCRC_4325_2020_SEGMENT_NULL_HOST_HUMAN"
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2009 },
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2010 "GB_MW596234_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_LA_CDC_STM_000008248_2021_SEGMENT_NULL_HOST_HUMAN":{
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2012 "original name":"GB_MW596234_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_LA_CDC_STM_000008248_2021_SEGMENT_NULL_HOST_HUMAN"
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2013 },
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2014 "GB_MW598427_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_GHA_NMIMR_SARS_COV_2_NTRA_15010_2020_SEGMENT_NULL_HOST_HUMAN":{
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f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2613 }
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2614 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2615 "settings":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2616 "bayes factor":100,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2617 "burn-in":1000000,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2618 "chain-length":2000000,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2619 "chains":1,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2620 "concentration":0.5,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2621 "grid size":20,
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2622 "method":"Variational-Bayes",
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2623 "samples":100
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2624 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2625 "site annotations":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2626 "headers":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2627 "Composition":"Amino acid composition of site",
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2628 "Substitutions":"Substitution history on selected branches"
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2629 },
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2630 "site annotations":{
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2631 "0": [
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2632 ["M12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2633 ["F12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2634 ["H12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2635 ["L12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2636 ["V12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2637 ["D11,G1", "D->G(1)"],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2638 ["F12", ""],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2639 ["H1,Q11", "Q->H(1)"],
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
2640 ["V12", ""],
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3061 "Residue A analysis":{
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3062 "order":21,
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3063 "timer":5
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3064 },
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3065 "Residue C analysis":{
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3066 "order":21,
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3068 },
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3069 "Residue D analysis":{
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3070 "order":21,
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3071 "timer":5
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3072 },
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3073 "Residue E analysis":{
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3074 "order":21,
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3075 "timer":5
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3076 },
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iuc
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3077 "Residue F analysis":{
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iuc
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3078 "order":21,
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3079 "timer":5
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iuc
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3080 },
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iuc
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3081 "Residue G analysis":{
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iuc
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3082 "order":21,
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3083 "timer":5
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iuc
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3084 },
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iuc
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3085 "Residue H analysis":{
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iuc
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3086 "order":21,
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3087 "timer":6
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iuc
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3088 },
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iuc
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3089 "Residue I analysis":{
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iuc
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3090 "order":21,
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iuc
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3091 "timer":5
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iuc
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3092 },
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iuc
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3093 "Residue K analysis":{
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iuc
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3094 "order":21,
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iuc
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3095 "timer":5
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iuc
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3096 },
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iuc
parents:
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3097 "Residue L analysis":{
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iuc
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3098 "order":21,
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iuc
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3099 "timer":6
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iuc
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3100 },
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iuc
parents:
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3101 "Residue M analysis":{
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iuc
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3102 "order":21,
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3103 "timer":5
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iuc
parents:
diff changeset
3104 },
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iuc
parents:
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3105 "Residue N analysis":{
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iuc
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3106 "order":21,
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iuc
parents:
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3107 "timer":5
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iuc
parents:
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3108 },
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iuc
parents:
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3109 "Residue P analysis":{
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iuc
parents:
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3110 "order":21,
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iuc
parents:
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3111 "timer":5
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iuc
parents:
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3112 },
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iuc
parents:
diff changeset
3113 "Residue Q analysis":{
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iuc
parents:
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3114 "order":21,
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iuc
parents:
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3115 "timer":5
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iuc
parents:
diff changeset
3116 },
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iuc
parents:
diff changeset
3117 "Residue R analysis":{
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iuc
parents:
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3118 "order":21,
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iuc
parents:
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3119 "timer":6
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parents:
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3120 },
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iuc
parents:
diff changeset
3121 "Residue S analysis":{
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iuc
parents:
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3122 "order":21,
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iuc
parents:
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3123 "timer":5
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iuc
parents:
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3124 },
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iuc
parents:
diff changeset
3125 "Residue T analysis":{
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iuc
parents:
diff changeset
3126 "order":21,
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iuc
parents:
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3127 "timer":5
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iuc
parents:
diff changeset
3128 },
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iuc
parents:
diff changeset
3129 "Residue V analysis":{
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iuc
parents:
diff changeset
3130 "order":21,
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iuc
parents:
diff changeset
3131 "timer":5
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iuc
parents:
diff changeset
3132 },
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iuc
parents:
diff changeset
3133 "Residue W analysis":{
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iuc
parents:
diff changeset
3134 "order":21,
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iuc
parents:
diff changeset
3135 "timer":5
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iuc
parents:
diff changeset
3136 },
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iuc
parents:
diff changeset
3137 "Residue Y analysis":{
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iuc
parents:
diff changeset
3138 "order":21,
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iuc
parents:
diff changeset
3139 "timer":5
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iuc
parents:
diff changeset
3140 }
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
3141 }
f304c108aa1f "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"
iuc
parents:
diff changeset
3142 }