RSS 186 projects tagged "Bioinformatics"

Download Website Updated 26 Jul 2007 AGM Build

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Pop 23.49
Vit 49.64

AGM Build is a molecular builder and conformational editor. It can be used for interactive model preparation for molecular dynamics simulations, including association of atom types and partial charges. It features geometry editing, lattice building, building of chain molecules (e.g. proteins), chains with predetermined conformations, and charges and atom types according to selected Force Field.

Download Website Updated 22 Jan 2008 Adun

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Pop 26.08
Vit 2.91

Adun is an extensible biomolecular simulation program that includes data management and analysis capabilities.

Download No website Updated 01 Nov 2004 AntFlow

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Pop 56.04
Vit 1.00

AntFlow builds upon Apache Ant to provide a new approach to simplifying system automation that uses pipelines of hot folders chained together to perform a given task. Using XML, it associates an automated task such as data transfer, encryption, or XML processing with a directory on the local system. Whenever a file is copied or written into the hot folder, the associated task is executed and the file is moved to the next hot folder in the pipeline for further processing.

Download Website Updated 06 Jun 2001 Arka

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Pop 13.96
Vit 3.20

Arka provides a nice GUI for the gp package of command-line utilities for manipulation and display of DNA/RNA/protein sequences, the WU-BLAST and FASTA program families, and additional graphical tools for various aspects of sequence analysis (e.g., GC plots and 3D graphs). It provides editable and saveable windows for standard input, output and error, and a dialog for any command-line program with specifications in a configuration file.

Download Website Updated 17 Oct 2004 Artemis

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Pop 19.44
Vit 2.00

Artemis is a DNA sequence viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation. It can read and write complete EMBL and GENBANK database entries or sequence in FASTA or raw format. Extra sequence features can be in EMBL, GENBANK, or GFF format.

No download Website Updated 22 Mar 2010 Ascalaph

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Pop 21.52
Vit 38.67

Ascalaph is a general purpose 3D graphical molecular modeling suite that performs molecular mechanics and molecular dynamics simulations as well as quantum mechanics calculations.

No download Website Updated 16 Apr 2004 Asymptopia Flashcard System

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Pop 48.99
Vit 3.26

Asymptopia Flashcard System uses Motif and LaTeX to produce, manage, and use attractively formatted flashcards. You load some or all of your "collections" and set the timer for pop-up frequency. The GUI interface and "Collection Manager" make creating and modifying flashcards as simple as pushing a single button. A knowledge of LaTeX is only required when entering special symbols.

No download Website Updated 07 Dec 2010 BALL

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Pop 46.77
Vit 3.56

The Biochemical ALgorithms Library (BALL) is a framework for rapid application development in molecular modeling and structural bioinformatics. BALL provides an extensive set of data structures as well as classes for molecular mechanics, advanced solvation methods, comparison and analysis of protein structures, file import/export, NMR shift prediction, and visualization. Its extensibility results from an object-oriented and generic programming approach.

Download Website Updated 28 Oct 2011 BALLView

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Pop 60.79
Vit 6.68

BALLView is an extensible viewer for bio-molecular structures. It provides all standard models and offers rich functionality for molecular modeling and simulation, including molecular mechanics methods (AMBER, CHARMM, and MMFF94 force fields), continuum electrostatics methods employing a Finite-Difference Poisson Boltzmann solver, secondary structure calculation, molecular editing and docking. Since BALLView is based on BALL (the Biochemical ALgorithms Library), it is easily extensible on the level of C++ code. In addition, it provides a Python interface with Integrated Development Environment features to allow interactive rapid prototyping.

No download Website Updated 23 May 2004 BLAST on CD

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Pop 17.44
Vit 1.00

BLAST on CD is a live CD distribution based on DNAlinux that runs the NCBI BLAST server. It does not require installation and comes with the SARS and smallpox genomes.

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MeTA1

A message transfer agent.

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Poor Richard's Independent anDroid Environment.