diff --git a/templates/BDSKY_contemp.xml b/templates/BDSKY_contemp.xml index ae02a2c..18f0852 100644 --- a/templates/BDSKY_contemp.xml +++ b/templates/BDSKY_contemp.xml @@ -63,25 +63,25 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, - - - - - - - + + + + + + + - - - + + + - + - + ]]> @@ -91,19 +91,19 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, prior on becomeUninfectiousRate.t:$(n) prior on reproductiveNumber.t:$(n) - Scales all internal nodes for tree t:$(n) - Scales root node for tree t:$(n) - Draws new internal node heights uniformally for tree t:$(n) - Performs subtree slide rearrangement of tree t:$(n) - Narrow exchange performs local rearrangement of tree t:$(n) - Wide exchange performs global rearrangement of tree t:$(n) - Performs Wilson-Balding global rearrangement of tree t:$(n) - - - - - - + Scales all internal nodes for tree t:$(n) + Scales root node for tree t:$(n) + Draws new internal node heights uniformally for tree t:$(n) + Performs subtree slide rearrangement of tree t:$(n) + Narrow exchange performs local rearrangement of tree t:$(n) + Wide exchange performs global rearrangement of tree t:$(n) + Performs Wilson-Balding global rearrangement of tree t:$(n) + + + + + + diff --git a/templates/BDSKY_contemp_bdsparam.xml b/templates/BDSKY_contemp_bdsparam.xml index 1368405..9d91350 100644 --- a/templates/BDSKY_contemp_bdsparam.xml +++ b/templates/BDSKY_contemp_bdsparam.xml @@ -42,35 +42,35 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, - + - + - + - - - - - - - + + + + + + + - - - + + + - + @@ -79,22 +79,22 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, - prior on sampling proportion t:$(n) - prior on deathRateBDS.t:$(n) - prior on birthRateBDS.t:$(n) - - Scales all internal nodes for tree t:$(n) - Scales root node for tree t:$(n) - Draws new internal node heights uniformally for tree t:$(n) - Performs subtree slide rearrangement of tree t:$(n) - Narrow exchange performs local rearrangement of tree t:$(n) - Wide exchange performs global rearrangement of tree t:$(n) - Performs Wilson-Balding global rearrangement of tree t:$(n) - - - - - + prior on sampling proportion t:$(n) + prior on deathRateBDS.t:$(n) + prior on birthRateBDS.t:$(n) + + Scales all internal nodes for tree t:$(n) + Scales root node for tree t:$(n) + Draws new internal node heights uniformally for tree t:$(n) + Performs subtree slide rearrangement of tree t:$(n) + Narrow exchange performs local rearrangement of tree t:$(n) + Wide exchange performs global rearrangement of tree t:$(n) + Performs Wilson-Balding global rearrangement of tree t:$(n) + + + + + diff --git a/templates/BDSKY_multiRho.xml b/templates/BDSKY_multiRho.xml index 333ca10..8865b70 100644 --- a/templates/BDSKY_multiRho.xml +++ b/templates/BDSKY_multiRho.xml @@ -63,25 +63,25 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, - - - - - - - + + + + + + + - - - + + + - + - + ]]> @@ -91,19 +91,19 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, prior on becomeUninfectiousRate.t:$(n) prior on reproductiveNumber.t:$(n) - Scales all internal nodes for tree t:$(n) - Scales root node for tree t:$(n) - Draws new internal node heights uniformally for tree t:$(n) - Performs subtree slide rearrangement of tree t:$(n) - Narrow exchange performs local rearrangement of tree t:$(n) - Wide exchange performs global rearrangement of tree t:$(n) - Performs Wilson-Balding global rearrangement of tree t:$(n) - - - - - - + Scales all internal nodes for tree t:$(n) + Scales root node for tree t:$(n) + Draws new internal node heights uniformally for tree t:$(n) + Performs subtree slide rearrangement of tree t:$(n) + Narrow exchange performs local rearrangement of tree t:$(n) + Wide exchange performs global rearrangement of tree t:$(n) + Performs Wilson-Balding global rearrangement of tree t:$(n) + + + + + + diff --git a/templates/BDSKY_serial.xml b/templates/BDSKY_serial.xml index 07a60a9..374f5c9 100644 --- a/templates/BDSKY_serial.xml +++ b/templates/BDSKY_serial.xml @@ -64,25 +64,25 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, - - - - - - - + + + + + + + - - - + + + - + - + ]]> @@ -92,19 +92,19 @@ suppressInputs='beast.evolution.speciation.BirthDeathSkylineModel.intervalTimes, prior on becomeUninfectiousRate.t:$(n) prior on reproductiveNumber.t:$(n) - Scales all internal nodes for tree t:$(n) - Scales root node for tree t:$(n) - Draws new internal node heights uniformally for tree t:$(n) - Performs subtree slide rearrangement of tree t:$(n) - Narrow exchange performs local rearrangement of tree t:$(n) - Wide exchange performs global rearrangement of tree t:$(n) - Performs Wilson-Balding global rearrangement of tree t:$(n) - - - - - - + Scales all internal nodes for tree t:$(n) + Scales root node for tree t:$(n) + Draws new internal node heights uniformally for tree t:$(n) + Performs subtree slide rearrangement of tree t:$(n) + Narrow exchange performs local rearrangement of tree t:$(n) + Wide exchange performs global rearrangement of tree t:$(n) + Performs Wilson-Balding global rearrangement of tree t:$(n) + + + + + +