BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics

BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics

Phylogenetic inference is fundamental to our understanding of most aspects of the origin and evolution of life, and in recent years, there has been a concentration of interest in statistical approaches such as Bayesian inference and maximum likelihood estimation. Yet, for large data sets and realistic or interesting models of evolution, these approaches remain computationally demanding. High-th...

High-Performance Reconfigurable Computing Application Programming

Input and Output Application Programming Interface for Plaid Standard Library

Object oriented (OO) is the most accepted object modeling languages nowadays. Although OO languages are successful in modeling real world entities, nevertheless, there is little to no support for modeling state of object precisely in code. To overcome this problem, a new general purpose programming language is proposed that is built on two paradigms which are typestate-oriented and permission-b...

OMPT: An OpenMP Tools Application Programming Interface for Performance Analysis

A shortcoming of OpenMP standards to date is that they lack an application programming interface (API) to support construction of portable, efficient, and vendor-neutral performance tools. To address this issue, the tools working group of the OpenMP Language Committee has designed OMPT—a performance tools API for OpenMP. OMPT enables performance tools to gather useful performance information fr...

Modelface: an application programming interface (API) for homology modeling studies using Modeller software

An interactive application, Modelface, was presented for Modeller software based on windows platform. The application is able to run all steps of homology modeling including pdb to fasta generation, running clustal, model building and loop refinement. Other modules of modeler including energy calculation, energy minimization and the ability to make single point mutations in the PDB structures a...