171 projects tagged "Bioinformatics"
Updated 27 Sep 2009
Bioperl
| Pop | 89.96 |
|---|---|
| Vit | 8.70 |
Bioperl is set of Perl Modules for bioinformatics. It contains objects for Sequences, features on Sequences, and other important bioinformatics attributes.
Updated 30 Jan 2001
Clarrhmos
| Pop | 32.50 |
|---|---|
| Vit | 1.00 |
Clarrhmos is a description language and simulator for myocardial structure and electrophysiology. Input to the program is a model file specifying types of cells, action potential shape, refractory period, 3D placement of the cells, relation of parameters to other functions, pacing, electrode placement. Output is a file describing depolarisation and repolarisation of the myocardium and electrograms. A graphic tool for interactive inspection of the output file is also included.
Updated 26 Oct 2011
E-Cell System
| Pop | 151.43 |
|---|---|
| Vit | 15.36 |
E-Cell System is an object-oriented software suite for modelling, simulation, and analysis of large scale complex systems such as biological cells. It allows many components, driven by multiple algorithms with different timescales, to coexist. The core library is written in C++ with a Python binding, and frontend software uses Python.
Updated 30 Jan 2001
EGO
| Pop | 45.73 |
|---|---|
| Vit | 1.00 |
EGO is a program to perform molecular dynamics simulations on parallel as well as on sequential computers. Supported parallel machines include the Hitachi SR8000, CRAY-T3E, IBM-SP2, Fujitsu VPP700, Parsytec-CC under PARIX, and inhomogeneous clusters of UNIX workstations under PVM or MPI. EGO also runs sequentially on any decent UNIX workstation, even Windows95/NT PC's (with a GNU-C compiler) can be used.
Updated 15 Aug 2001
Ensembl
| Pop | 21.35 |
|---|---|
| Vit | 1.84 |
Ensembl is an open source project to create and automatically maintain annotations on DNA sequence.
Updated 06 Jun 2001
Genpak
| Pop | 38.85 |
|---|---|
| Vit | 2.97 |
Genpak is a small set of utilities designated to process DNA, RNA, and protein sequences in a very Un*x-like manner. This way, Genpak programs can be combined using pipes and redirections, as well as easily incorporated into CGI scripts. The utilities include a program for calculating GC content, Tm, translating DNA/RNA sequences into protein sequences, quick sequence retrieval, random sequence generation, and finding promoter sequences using a Hertz matrix.
Updated 24 Sep 2007
Ghemical
| Pop | 133.24 |
|---|---|
| Vit | 6.98 |
Ghemical is a molecular modelling software package with some nice 3D visualization tools. It supports methods based on both molecular mechanics and quantum mechanics (using MOPAC7, and MPQC for QM). The geometry optimization (for MM and QM) and molecular dynamics (for MM) algorithms are included. Ghemical is written in C++, and hopefully offers a good framework for a generic freeware molecular modelling tool.
Updated 30 Jan 2001
Mavric
| Pop | 14.63 |
|---|---|
| Vit | 1.00 |
Mavric is a python module/application that aims to be a user-friendly tool for manipulating phylogenetic trees on *NIX-like systems running X Windows. As such, it complements other phylogeny programs that currently lack a nice graphical interface.
Updated 28 Oct 2011
NAMD
| Pop | 66.33 |
|---|---|
| Vit | 11.44 |
NAMD is a parallel, object-oriented molecular dynamics program designed for high-performance simulation of large biomolecular systems.
Updated 11 Mar 2009
ploticus
| Pop | 293.10 |
|---|---|
| Vit | 8.05 |
PLOTICUS is a command line utility for creating bar, line, pie, boxplot, scatterplot, sweep, heatmap, vector, timeline, Venn diagrams, and other types of charts and plots. ploticus is good for automated or just-in-time graph generation. It handles date, time, and categorical data nicely, and has some basic statistical capabilities. It can output to GIF, PNG, SVG, SWF, JPEG, PostScript, EPS, and X11. You can use convenient preset options or create complex scripts with rich and detailed color and style operations.
