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davewalker5davewalker5
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Merge pull request #11 from davewalker5/hky85-substitution
Implemented the HKY85 substitution model
2 parents 4519154 + 5c65f2a commit 85c6c32

10 files changed

Lines changed: 319 additions & 111 deletions

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‎data/output/relaxed_clock/distance_matrix.csv‎

Lines changed: 8 additions & 8 deletions
Original file line numberDiff line numberDiff line change
@@ -1,9 +1,9 @@
11
,Taxon_1,Taxon_2,Taxon_3,Taxon_4,Taxon_5,Taxon_6,Taxon_7,Taxon_8
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3-
Taxon_2,0.018219702226302027,0.0,0.02853649535271618,0.032703336340451694,0.04110693360506224,0.03479551265867519,0.028536530602033386,0.04534428666594305
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Taxon_3,0.018219735603677463,0.02853649535271618,0.0,0.01413244746928469,0.03479543163610506,0.028536627561545475,0.026461843531136585,0.04322272236275611
5-
Taxon_4,0.02232945480948009,0.032703336340451694,0.01413244746928469,0.0,0.036893436491802524,0.03061718083484881,0.028536630500259636,0.04534451450623014
6-
Taxon_5,0.030617018339994213,0.04110693360506224,0.03479543163610506,0.036893436491802524,0.0,0.01006732738477281,0.012097126770072644,0.028536385228448646
7-
Taxon_6,0.02439282840360737,0.03479551265867519,0.028536627561545475,0.03061718083484881,0.01006732738477281,0.0,0.006024157529033722,0.022329397406809236
8-
Taxon_7,0.01821975885462701,0.028536530602033386,0.026461843531136585,0.028536630500259636,0.012097126770072644,0.006024157529033722,0.0,0.01617328203901011
9-
Taxon_8,0.03479538565766437,0.04534428666594305,0.04322272236275611,0.04534451450623014,0.028536385228448646,0.022329397406809236,0.01617328203901011,0.0
2+
Taxon_1,0.0,0.018222726885298832,0.018222718433279644,0.02233805190080341,0.03061998107902342,0.024395776024465427,0.018222791421327985,0.034795471631397776
3+
Taxon_2,0.018222726885298832,0.0,0.028537559731535447,0.03270864627778447,0.04110795292355397,0.03479650947613942,0.02853771418275907,0.0453453650751358
4+
Taxon_3,0.018222718433279644,0.028537559731535447,0.0,0.014133720523551909,0.03479644723760468,0.028537667284059227,0.026467278903308855,0.04322216657530347
5+
Taxon_4,0.02233805190080341,0.03270864627778447,0.014133720523551909,0.0,0.03690617822573075,0.030629747460649462,0.028559374911983827,0.04534984603461075
6+
Taxon_5,0.03061998107902342,0.04110795292355397,0.03479644723760468,0.03690617822573075,0.0,0.010072799445289052,0.012097099807314259,0.028542080310967333
7+
Taxon_6,0.024395776024465427,0.03479650947613942,0.028537667284059227,0.030629747460649462,0.010072799445289052,0.0,0.006024147424968367,0.022334996717973447
8+
Taxon_7,0.018222791421327985,0.02853771418275907,0.026467278903308855,0.028559374911983827,0.012097099807314259,0.006024147424968367,0.0,0.016178852166213727
9+
Taxon_8,0.034795471631397776,0.0453453650751358,0.04322216657530347,0.04534984603461075,0.028542080310967333,0.022334996717973447,0.016178852166213727,0.0

‎data/output/relaxed_clock/distance_matrix.json‎

Lines changed: 57 additions & 57 deletions
Original file line numberDiff line numberDiff line change
@@ -1,5 +1,5 @@
11
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"distance_metric": "hky85",
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