Twenty-first century biological science have transformed into data-intensive sciences because various scientific breakthroughs will be powered by advanced computing capabilities which help researchers to manipulate and explore huge datasets. So computational biological techniques useful in organise and interpret plentitude of biological data. This page contains brief description of commonly used computational packages required in OSDD-Linux.
There are following packages included in OSDD-Linux-
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| Packages | Description |
| BLAST | BLAST is a heuristic algorithm that performs DNA and protein sequence similarity search for common words or k-tuples. |
| PSIPRED | PSIPRED is a protein secondary structure prediction program that includes two feed-forward neural networks to perform an analysis of results obtained by the PSI-Blast. |
| Psiblast | PsiBlast stands for Position-Specific Iterated Blast by NCBI under Blastp suite. |
| HMMER | HMMER is used for searching sequence databases for homologs of protein sequences and for making protein sequence alignment by implementing the Hidden Markov Model. |
| MEME/MAST | MEME/MAST is a motif based sequence analysis tool that allows to discover motifs using MEME,DREME(DNA only) or GLAM2 on groups of related DNA or protein sequences. |
| IPRSCAN | IPRSCAN is a program that scans sequence for matches against the InterPro collection of protein signature database. |
| ClustalW | ClustalW is a multiple sequence alignment program for DNA and protein provided by EMBL-EBI. |
| Package Name | Brief Description |
| SVM | Support Vector Machineare supervised learning models with associated learning algorithm that analyse data and recognize patterns, used for classification and regression analysis. |
| ANN | Artificial Neural Networkare models that are capable of machine learning and pattern recognition. |
| kNN | k-nearest neighbouris a non-parameteric method for classifying objects based on closest training examples in the feature space. |
| Weka | Waikato Environment for Knowledge analysisis a popular suite of machine learning written in java. |
| Package Name | Brief Description |
| Babel | Babel is a chemical toolbox designed to convert one chemical file format to another. |
| Jmol | Jmol is open source java viewer for chemical structures in 3D. |
| Autodock | Autodock is a suite of automated docking tools designed to predict how drug bind to a receptor of known 3D structure. |
| Dock | Dock uses genetic algorithm to predict the binding modes of small molecules. |
| AutoDock Vina | AutoDock Vina is an open source program for molecular docking on windows platform. |
| PharmaGist | PharmaGist is a freely available webserver that detects the pharmacophore. |
