FATSLiM
0.2.1
  • 1. Overview
  • 2. Installing FATSLiM
  • 3. User interface
  • 4. Leaflet and membrane identification
  • 5. Thickness calculation
  • 6. Membrane area and Area per lipid calculation
  • 7. Tutorials & Examples
FATSLiM
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  • Welcome to FATSLiM's documentation!
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Welcome to FATSLiM's documentation!¶

Release:0.2.1
Date:September 29, 2016

FATSLiM (Fast Analysis Toolbox for Simulations of Lipid Membranes - fatslim.github.io) is a software dedicated to the analysis of molecular dynamics simulations of lipid membranes.

It can read Gromacs file formats.

Contents:

  • 1. Overview
  • 2. Installing FATSLiM
    • 2.1. Requirements
    • 2.2. Pre-installation
    • 2.3. Installation
    • 2.4. Post-installation
  • 3. User interface
    • 3.1. Command line interface
    • 3.2. General commands and options
    • 3.3. Analytical commands and related options
  • 4. Leaflet and membrane identification
    • 4.1. How FATSLiM identifies leaflets and membranes
    • 4.2. Associated command and parameters
  • 5. Thickness calculation
    • 5.1. How FATSLiM estimates membrane thickness
    • 5.2. Associated command and parameters
  • 6. Membrane area and Area per lipid calculation
    • 6.1. How FATSLiM estimates membrane area and area per lipid
    • 6.2. Associated command and parameters
  • 7. Tutorials & Examples
    • 7.1. Introduction
    • 7.2. Tutorial #1: Simple membrane identification
    • 7.3. Tutorial #2: Membrane thickness over trajectory
    • 7.4. Tutorial #3: Vesicle membrane area and area per lipid
    • 7.5. Tutorial #4: Extracting raw APL data for further processing

Indices and tables¶

  • Index
  • Module Index
  • Search Page
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© Copyright 2016, Sébastien Buchoux.

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