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454

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A tools package for 454 sequencing analysis.

ABySS

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ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size. The parallel version is implemented using MPI and is capable of assembling larger genomes. To assemble transcripto...

Accelrys Software Link icon

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The ABCC supports three program packages from Accelrys: Discovery Studio, Materials Studio, and Pipeline Pilot. In addition, Accelrys has made available a large number of legacy programs. Technical support for these legacy programs is available directly from Accelrys

http://isp.ncifcrf.gov/abcc/molecular-modeling-software/acelrys-software/

AMBER Link icon

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Amber is a molecular dynamics software suite for carrying out molecular dynamics biomolecule simulations.

http://isp.ncifcrf.gov/abcc/molecular-modeling-software/amber/

AMOS

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The AMOS consortium is committed to the development of open-source whole genome assembly software. The project acronym (AMOS) represents our primary goal -- to produce A Modular, Open-Source whole genome assembler. Open-source so that everyone is welcome to contribute and help build outstanding ass...

AutoDock

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AutoDock is a suite of automated docking tools. It is designed to predict how small molecules, such as substrates or drug candidates, bind to a receptor of known 3D structure.

AutoDock-Vina

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AutoDock-Vina is an automated receptor-ligand docking software.

BEDtools

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BEDTools is a collection of utilities for comparing, summarizing, and intersecting genomic features in BED, GTF/GFF, VCF and BAM formats.

BFAST

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Blat-like Fast Accurate Search Tool. BFAST was designed to facilitate whole-genome resequencing, where mapping billions of short reads with variants is of utmost importance. BFAST supports both Illumina and ABI SOLiD data, as well as any other Next-Generation Sequencing Technology (454, Helicos), w...

BioMarker Discovery Kit (BMDK) Link icon

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BMDK is a suite of programs that search for putative biomarkers from gene or protein expression data

http://isp.ncifcrf.gov/abcc/abcc-groups/simulation-and-modeling/biomarker-discovery-kit/