| [BWA](http://bio-bwa.sourceforge.net/) | Burrows-Wheeler Aligner (BWA) is an efficient program that aligns relatively short nucleotide sequences against a long reference sequence such as the human genome. |
| [Cordax](https://cordax.switchlab.org/) | CORDAX is an aggregation propensity predictor based on predicted packing energies. |
| [ctffind](https://grigoriefflab.umassmed.edu/ctffind4) | Program for finding CTFs of electron micrographs. |
| [FastCGI](https://github.com/FastCGI-Archives/fcgi2) | A High-Performance Web Server Interface |
| [FoldX](http://http://foldxsuite.crg.eu/) | FoldX is used to provide a fast and quantitative estimation of the importance of the interactions contributing to the stability of proteins and protein complexes. |
| [GATK](https://www.broadinstitute.org/gatk/) | The Genome Analysis Toolkit or GATK is a software package developed at the Broad Institute to analyse next-generation resequencing data. The toolkit offers a wide variety of tools, with a primary focus on variant discovery and genotyping as well as strong emphasis on data quality assurance. Its robust architecture, powerful processing engine and high-performance computing features make it capable of taking on projects of any size. |
| [GROMACS](http://www.gromacs.org) | GROMACS is a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles. |
