Parsimonator

From UFRC
Jump to navigation Jump to search

Description

parsimonator website  

Parsimonator v1.0.2 source code available here: https://github.com/stamatak/Parsimonator-1.0.2.

Parsimonator is a no-frills light-weight implementation for building starting trees under parsimony for RAxML-Light.

It deploys a randomized stepwise addition order algorithm to build trees and thereafter conducts a couple of SPR (Subtree Pruning Re-Grafting moves) to further improve the parsimony score.

Right now, parsimonator can only compute trees on DNA datasets. It uses SSE3 128-bit wide and 256-bit wide AVX (new as of v101) vector instructions to significantly accelerate parsimony computations.

Required Modules

Serial

  • gcc/5.2.0
  • parsimonator

System Variables

  • HPC_PARSIMONATOR_DIR - installation directory