SimPhy

SimPhy copied to clipboard

The -SP option should not be required when the user inputs this information per population for all populations in a tree input (species or locus). At least, this minor bug...

adamallo

Species tree node labelling

4

Hi, It seems that, after setting the OL parameter to 1, the internal nodes of the species tree in s_tree.trees file are numbered in inorder, while the same nodes in...

mciach

adamallo

Bug in bounded-subtree output file

4

Locus-tree leaves coming from simulated species trees are incorrect.

adamallo

SimPly generating fewer gene trees than expected.

1

Hi, I'm currently using SimPhy to simulate gene trees off of a provided species tree and a data frame with simulation parameters. The data frame I provide is 2000 lines...

alexandrawalling

Question about population size and generation time

1

Hi, I am using Simphy for simulating some gene trees. I estimated the substitutions/ coalescent units already and changed our grand truth tree into coalescence unit already. In this case,...

bingli8899