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Popular pages
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The Amber Molecular Dynamics Package
Amber is a package of programs for molecular dynamics simulations of proteins and nucleic acids
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Amber Tutorials
A set of tutorials for learning how to use the AMBER molecular dynamics software.
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Amber Manuals
Amber Reference Manuals There is one combined Amber and AmberTools reference manual: Amber 2023 Reference Manual as an Acrobat (PDF) file. (Updated on 21 Apr 2023.) The lmod example files were inadv...
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Installing Amber
Installing Amber These are specific instructions and shortcuts for getting Amber installed on popular operating systems. This information supplements what is in Chapter 2 of the Amber 2024 Reference...
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AmberTools24
AmberTools is a freely distributed component of the Amber package of programs for molecular dynamics simulations of proteins and nucleic acids
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Running MD with pmemd
Running MD with pmemd Introduction This tutorial will introduce you to running a molecular dynamics(MD) simulation under production run conditions using pmemd. It will use the protein system prepared ...