excellent timetree marginal parameters

ktmeaton · Feb 26, 2021 · 0f8f57d · 0f8f57d
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diff --git a/auspice/plague-phylogeography_clock-model.json b/auspice/plague-phylogeography_clock-model.json
diff --git a/results/clock_model/clock_model.nexus b/results/clock_model/clock_model.nexus
diff --git a/results/clock_model/clock_model.nwk b/results/clock_model/clock_model.nwk
diff --git a/results/clock_model/clock_model.tsv b/results/clock_model/clock_model.tsv
diff --git a/results/clock_model/clock_model.xml b/results/clock_model/clock_model.xml
diff --git a/results/clock_model/clock_model_augur.json b/results/clock_model/clock_model_augur.json
diff --git a/results/clock_model/clock_model_auspice.json b/results/clock_model/clock_model_auspice.json
diff --git a/results/clock_model/clock_model_divtree-prune.svg b/results/clock_model/clock_model_divtree-prune.svg
diff --git a/results/clock_model/clock_model_divtree-rate.svg b/results/clock_model/clock_model_divtree-rate.svg
diff --git a/results/clock_model/clock_model_rate-variation.svg b/results/clock_model/clock_model_rate-variation.svg
diff --git a/results/clock_model/clock_model_rtt-pre.svg b/results/clock_model/clock_model_rtt-pre.svg
diff --git a/results/clock_model/clock_model_rtt.svg b/results/clock_model/clock_model_rtt.svg
diff --git a/results/clock_model/clock_model_skyline.svg b/results/clock_model/clock_model_skyline.svg
diff --git a/results/clock_model/clock_model_skyline.tsv b/results/clock_model/clock_model_skyline.tsv
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+#Skyline assuming 50 gen/year and approximate confidence bounds (+/- 2.000000 standard deviations of the LH)
+#date 	N_e 	lower 	upper
+-3932.9	53080.3	20860.5	135065.2
+-3619.7	66838.8	33462.2	133506.7
+-3306.4	89664.9	47148.0	170522.5
+-2993.1	97864.6	47902.7	199936.4
+-2679.9	86521.5	44797.9	167105.5
+-2366.6	83034.6	43327.4	159131.2
+-2053.4	94750.9	47587.1	188659.1
+-1740.1	112195.6	57568.6	218658.2
+-1426.8	176479.1	90622.2	343678.0
+-1113.6	210033.6	103254.4	427237.2
+-800.3	211232.6	104152.2	428404.0
+-487.1	213721.4	105379.3	433451.5
+-173.8	219351.2	111720.4	430672.9
+139.4	188381.0	100721.2	352333.2
+452.7	160394.1	88985.0	289107.9
+766.0	229896.8	128990.4	409740.1
+1079.2	212972.9	122598.0	369968.9
+1392.5	187911.5	126247.6	279694.3
+1705.7	632260.1	530876.7	753005.1
+2019.0	280915.5	241874.6	326258.0