Mercurial > repos > iuc > hyphy_fubar

diff test-data/summary/nsp8-segment.json @ 27:8741542f9bc8 draft

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"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 b2096be81d82
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/summary/nsp8-segment.json	Wed Jun 09 07:07:10 2021 +0000
@@ -0,0 +1,122 @@
+{
+ "nsp8": {
+  "map": [],
+  "rates": {
+   "mean-omega": {
+    "B-1-617": 21.18256593595067,
+    "Reference": 0,
+    "background": 0.5156677174296214
+   },
+   "T": {
+    "B-1-617": 0.003269500911862614,
+    "Reference": 0.001919664151147453,
+    "background": 0.10664581418249912
+   },
+   "relax": {
+    "B-1-617": [
+     {
+      "omega": 0,
+      "proportion": 0.3229316344832856
+     },
+     {
+      "omega": 0,
+      "proportion": 0.6561871399951409
+     },
+     {
+      "omega": 887.8019782663979,
+      "proportion": 0.02088122552157349
+     }
+    ],
+    "Reference": [
+     {
+      "omega": 0,
+      "proportion": 0.3229316344832856
+     },
+     {
+      "omega": 0,
+      "proportion": 0.6561871399951409
+     },
+     {
+      "omega": 887.8019782663979,
+      "proportion": 0.02088122552157349
+     }
+    ],
+    "background": [
+     {
+      "omega": 0,
+      "proportion": 0.3229316344832856
+     },
+     {
+      "omega": 0,
+      "proportion": 0.6561871399951409
+     },
+     {
+      "omega": 2.618905128891877,
+      "proportion": 0.02088122552157349
+     }
+    ]
+   },
+   "busted": {
+    "Background": {
+     "0": {
+      "omega": 0,
+      "proportion": 0.02741862862724963
+     },
+     "1": {
+      "omega": 0.1719979491289183,
+      "proportion": 0.8111826871363725
+     },
+     "2": {
+      "omega": 2.232058479326601,
+      "proportion": 0.1613986842363778
+     }
+    },
+    "Synonymous site-to-site rates": {
+     "0": {
+      "proportion": 0,
+      "rate": 0.9502886367487763
+     },
+     "1": {
+      "proportion": 1,
+      "rate": 1
+     },
+     "2": {
+      "proportion": 0,
+      "rate": 1.059678592887729
+     }
+    },
+    "Test": {
+     "0": {
+      "omega": 0.9993684330797956,
+      "proportion": 0
+     },
+     "1": {
+      "omega": 0.999368433118802,
+      "proportion": 0
+     },
+     "2": {
+      "omega": 25.32658549655282,
+      "proportion": 1
+     }
+    }
+   }
+  },
+  "relax": {
+   "p": 0.07260318641568564,
+   "K": 7.051367447513434
+  },
+  "busted": {
+   "p": 0.3056667368082906
+  },
+  "tree": "(REFERENCE,(gb_MT226610_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_CHN_KMS1_2020_Segment_null_Host_Human,epi_isl_1589870_hCoV_19_India_WB_1931501009078_2021)Node20,gb_MT326179_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WA_UW_1572_2020_Segment_null_Host_Human,epi_isl_1589885_hCoV_19_India_WB_1931300250528_2021,(epi_isl_1615709_hCoV_19_England_CAMC_14E792B_2021,gb_MW523870_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_LA_CDC_STM_A100279_2021_Segment_null_Host_Human)Node4,epi_isl_1592421_hCoV_19_USA_MA_CDC_STM_000044850_2021,gb_MW345265_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MD_MDH_0448_2020_Segment_null_Host_Human,gb_MW525063_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MI_CDC_STM_0000013_D10_2021_Segment_null_Host_Human,epi_isl_1181694_hCoV_19_USA_DE_DHSS_B1064373_2021,gb_MW585851_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_GA_CDC_STM_000004152_2021_Segment_null_Host_Human,(gb_MW583322_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_AL_CDC_STM_000001665_2021_Segment_null_Host_Human,gb_MW562702_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_UT_UPHL_2102128070_2020_Segment_null_Host_Human,epi_isl_1384851_hCoV_19_India_MH_NCCS_ND13683_2021)Node38,epi_isl_1357692_hCoV_19_India_WB_1931500870015_2021,gb_MW486334_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_WI_UW_2535_2020_Segment_null_Host_Human,epi_isl_1533793_hCoV_19_India_MH_NCCS_CHN21027888_2021,gb_LR757997_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_UNKNOWN_LR757997_Segment_null_Host_Human,epi_isl_1415270_hCoV_19_India_MH_NCCS_BJ2_2021,epi_isl_1543980_hCoV_19_Singapore_490_2021,epi_isl_1632256_hCoV_19_England_RAND_14E1D70_2021,gb_MT745751_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_BGD_DNAS_isl_BRB_2020_Segment_null_Host_Human,epi_isl_1573247_hCoV_19_Germany_un_RKI_I_068985_2021,gb_MW585867_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_CA_CDC_STM_000003621_2021_Segment_null_Host_Human,gb_MW540189_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MA_MASPHL_01215_2020_Segment_null_Host_Human,epi_isl_1652118_hCoV_19_Singapore_575_2021,epi_isl_1652105_hCoV_19_Singapore_561_2021,gb_MW593074_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_USA_MN_MDH_2645_2021_Segment_null_Host_Human,gb_MW154124_Organism_Severe_acute_respiratory_syndrome_coronavirus_2_Strain_Name_SARS_CoV_2_human_AUS_VIC7567_2020_Segment_null_Host_Human,epi_isl_1416968_hCoV_19_Guadeloupe_IPP06229_2021,epi_isl_1544068_hCoV_19_India_MH_NCCS_RT231527_2021)",
+  "tree_tags": {},
+  "prime-properties": [
+   "Factor I bipolar",
+   "Factor II secondary structure",
+   "Factor III volume",
+   "Factor IV composition",
+   "Factor V charge"
+  ],
+  "bgm": []
+ }
+}
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