hyphy_fubar: test-data/summary/ORF6.FADE.json comparison

comparison test-data/summary/ORF6.FADE.json @ 27:8741542f9bc8 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 00684bab4c9e740cfa6a39abc444380e6818fd97"

author	iuc
date	Wed, 09 Jun 2021 07:07:10 +0000
parents
children

comparison

equal deleted inserted replaced

-:cd41e7a4d35f
+:8741542f9bc8
+{
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+["rate", "Mean posterior relative rate at a site"],
+["bias", "Mean posterior bias parameter at a site"],
+["Prob[bias>0]", "Posterior probability of substitution bias"],
+["BayesFactor[bias>0]", "Empiricial Bayes Factor for substitution bias"]
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+}
+},
+"settings":{
+"bayes factor":100,
+"burn-in":1000000,
+"chain-length":2000000,
+"chains":1,
+"concentration":0.5,
+"grid size":20,
+"method":"Variational-Bayes",
+"samples":100
+},
+"site annotations":{
+"headers":{
+"Composition":"Amino acid composition of site",
+"Substitutions":"Substitution history on selected branches"
+},
+"site annotations":{
+"0":      [
+["M12", ""],
+["F12", ""],
+["H12", ""],
+["L12", ""],
+["V12", ""],
+["D11,G1", "D->G(1)"],
+["F12", ""],
+["H1,Q11", "Q->H(1)"],
+["V12", ""],
+["T12", ""],
+["I12", ""],
+["A12", ""],
+["E12", ""],
+["I12", ""],
+["L12", ""],
+["L12", ""],
+["I12", ""],
+["I12", ""],
+["M12", ""],
+["K1,R10,S1", "R->K(1)S(1)"],
+["T12", ""],
+["F12", ""],
+["K12", ""],
+["F1,V11", "V->F(1)"],
+["S12", ""],
+["I12", ""],
+["W12", ""],
+["N12", ""],
+["L12", ""],
+["D12", ""],
+["Y12", ""],
+["I12", ""],
+["I11,T1", ""],
+["N12", ""],
+["L12", ""],
+["I12", ""],
+["I12", ""],
+["K12", ""],
+["N12", ""],
+["L12", ""],
+["F1,S11", "C->F(1)"],
+["K12", ""],
+["S12", ""],
+["L12", ""],
+["T12", ""],
+["E12", ""],
+["N12", ""],
+["K12", ""],
+["Y12", ""],
+["S12", ""],
+["Q12", ""],
+["L12", ""],
+["D12", ""],
+["E12", ""],
+["E12", ""],
+["Q12", ""],
+["L1,P11", "P->L(1)"],
+["M12", ""],
+["E12", ""],
+["I12", ""],
+["C1,D11", "Y->C(1)"]
+]
+}
+},
+"tested":{
+"0":{
+"EPI_ISL_1181694_HCOV_19_USA_DE_DHSS_B1064373_2021":"test",
+"EPI_ISL_1284652_HCOV_19_GERMANY_SN_RKI_I_038291_2021":"test",
+"EPI_ISL_1442952_HCOV_19_SINGAPORE_321_2021":"test",
+"EPI_ISL_1470937_HCOV_19_USA_NY_PRL_2021_03_29_01C17_2021":"test",
+"EPI_ISL_1512225_HCOV_19_USA_GA_CDC_STM_000041012_2021":"test",
+"EPI_ISL_1516887_HCOV_19_AUSTRALIA_QLD1826_2021":"test",
+"EPI_ISL_1533793_HCOV_19_INDIA_MH_NCCS_CHN21027888_2021":"test",
+"EPI_ISL_1533799_HCOV_19_INDIA_MH_NCCS_9947_2021":"test",
+"EPI_ISL_1543980_HCOV_19_SINGAPORE_490_2021":"test",
+"EPI_ISL_1589923_HCOV_19_INDIA_WB_1930300571091_2021":"test",
+"EPI_ISL_1589926_HCOV_19_INDIA_WB_1930300586246_2021":"test",
+"EPI_ISL_1631286_HCOV_19_ENGLAND_CAMC_14E7527_2021":"test",
+"GB_LC571023_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_DP0724_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT326182_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CT_UW_1365_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT358638_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_DEU_FFM1_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT359866_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_ESP_VH198152683_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT447156_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_THA_SI200383_NT_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT449654_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_CA_CZB_1063_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT451104_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_AUS_VIC203_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT520188_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_MGH_00184_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT520493_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_MA_MGH_00316_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT601276_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_BGD_BCSIR_NILMRC_52_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT601281_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_BGD_BCSIR_NILMRC_67_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT612186_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_AUS_VIC1576_2020_SEGMENT_NULL_HOST_HUMAN":"background",
+"GB_MT627613_ORGANISM_SEVERE_ACUTE_RESPIRATORY_SYNDROME_CORONAVIRUS_2_STRAIN_NAME_SARS_COV_2_HUMAN_USA_WA_S260_2020_SEGMENT_NULL_HOST_HUMAN":"background",
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Mercurial > repos > iuc > hyphy_fubar

comparison test-data/summary/ORF6.FADE.json @ 27:8741542f9bc8 draft