Mercurial > repos > iuc > hyphy_absrel
diff test-data/busted-out2-1.json @ 26:5f2ca10db92a draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 3908306ffa6f6cbc7b83303b2d4c581406d2fad9"
| author | iuc |
|---|---|
| date | Tue, 27 Apr 2021 18:07:06 +0000 |
| parents | |
| children | 3f59ebfbfe3d |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/busted-out2-1.json Tue Apr 27 18:07:06 2021 +0000 @@ -0,0 +1,338 @@ +{ + "Evidence Ratios":{ + "constrained": [ +[0.935557169656361, 0.9478485707814517, 0.9365713272643597, 0.9348516866501475, 0.9478485707814517, 0.9470782825238451, 0.9404255507056813, 0.9445269614625446, 0.9357171171944089, 0.9445269614625446, 0.951038343352286, 0.9642191069363555, 0.9509681609268663, 0.9357171171944089, 0.9365508162861411, 0.9330337048596494, 0.9453769311406178, 0.9354507653189286, 0.9357171171944089, 0.951038343352286, 0.944959794342383, 0.951038343352286, 0.9554450473318812, 0.957741198595587, 0.9357223141306646, 0.9635859922205572, 0.9400812190552175, 0.9471227276423632, 0.9471155585144405, 0.951038343352286, 0.9425085292914046, 0.951038343352286, 0.9382075921692818, 0.9681439336221066, 9.055411306947674, 0.9467899324264936, 0.9478485707814517, 0.9398061397692539, 1.097085569751409, 1.371682580705311, 1.704754646360477, 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Version 2.1 adds a grid search for the initial starting point.\nVersion 2.2 changes the grid search to LHC, and adds an initial search phase to use adaptive Nedler-Mead. Version 3.0 implements the option\nfor branch-site variation in synonymous substitution rates. Version 3.1 adds HMM auto-correlation option for SRV, and binds SRV distributions for multiple branch sets\n", + "requirements":"in-frame codon alignment and a phylogenetic tree (optionally annotated with {})", + "version":"3.1" + }, + "background":0, + "branch attributes":{ + "0":{ + "B_FR_83_HXB2":{ + "MG94xREV with separate rates for branch sets":0.01243274064118979, + "Nucleotide GTR":0.01178680392701259, + "constrained":0.01256398347964253, + "original name":"B_FR_83_HXB2", + "unconstrained":0.01346367617740634 + }, + "B_US_83_RF":{ + "MG94xREV with separate rates for branch sets":0.02861520854418918, + "Nucleotide GTR":0.02637179869727959, + "constrained":0.02907713203932123, + "original name":"B_US_83_RF", + "unconstrained":0.03296423032791345 + }, + "B_US_86_JRFL":{ + "MG94xREV with separate rates for branch sets":0.01913497611653954, + "Nucleotide GTR":0.01766254318226218, + "constrained":0.01932498128977916, + "original name":"B_US_86_JRFL", + 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