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UGR Alhambra CSIRC

Area of Biology

Click on an application in order to view its instructions of use.

AMBERSet of applications for mechanical calculations and molecular dynamics of proteins and nucleic acids.
BLASRApplication to perform protein sequences alignments
BLASTApplication to make sequence alignments of proteins and nucleic acids.
CP2KApplication to perform atomistic and molecular simulations of solid state, liquid, molecular and biological systems.
ClustalWProgram for multiple sequence alignment program for DNA or proteins
DOCKDocking of proteins.
DesmondSoftware package to perform molecular dynamics simulations of biological systems
ExaMLExascale Maximum Likelihood (ExaML) code for phylogenetic inference using MPI
GROMACSSimulaciones de dinámica molecular de proteinas y ácido nucleicos.
HMMERSoftware suite for making and using Hidden Markov Models (HMMs) of biological sequences.
LAMMPSMolecular Dynamics Simulator
MrBayesMrBayes is a phylogenetic software used for determining the evolutive likelyhood of different species presenting common ancestors. This software is able to predict the appearing rates for each species from the differences between DNA segments of the considered species, through Montecarlo-type simulations over Markov Chains, .
NAMDParallel molecular dynamics code designed for high-performance simulation of large biomolecular systems
NWChemComputational chemistry package
PhyMLSoftware package to estimate maximum likelihood phylogenies from alignments of nucleotide or amino acid sequences
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