Tools¶

The developed tools installed on the public Koala’s server.

Pre-processing¶

Get Data¶

Tools to get and manipulate data on Koala.

Upload¶

Upload files from several sources.

Download PDB¶

Get PDB file from pdb.org.

Modif Data¶

Tools to manipulate PDB files.

Rename Atoms¶

Rename atoms that are not according to Gromacs.

Check PDB¶

Check PDB structures.

Split Models¶

Divide a PDB file with many models into many PDB files with just one model.

Merge PDB¶

Merge a set of PDB files into one PDB file with many models.

Ab initio predictors¶

Tools that run a evolutionary algorithm applied to the protein structure prediction problem.

Build Conformations¶

Create random conformations to a given amino acid sequence.

2PG Build population¶

Build a population file with random conformations used on 2PG algorithms.

MEAMT Build population¶

Build a population file with random conformations used on MEAMT algorithm.

Algorithms Predictors¶

A list of algorithms predictors

2PG Mono¶

Run the 2PG mono evolutionary algorithm

2PG NSGA2¶

Run the 2PG NSGAII evolutionary algorithm

2PG Random¶

Run the 2PG Random evolutionary algorithm.

2PG Monte Carlo¶

Run the 2PG MC evolutionary algorithm.

ProtPredEDA-RW¶

Run the ProPredEDA-RW evolutionary algorithm.

ProtPredEDA-Monte Carlo¶

Run the ProPredEDA-MC evolutionary algorithm

ProtPredEDA-EDA¶

Run the ProPredEDA-EDA evolutionary algorithm

ProtPredEDA-rBOA¶

Run the ProPredEDA-rBOA evolutionary algorithm

ProtPredEDA-GA¶

Run the ProPredEDA-GA evolutionary algorithm

ProtPredEDA-DE¶

Run the ProPredEDA-DE evolutionary algorithm

MEAMT¶

Run the MEAMT algorithm.