# Interactive tutorials¶

To help you get the most out of **lipyphilic**, we have created a set of interactive tutorials
in the form of Jupyter Notebooks. There is no need to download or install anything, simply click
the link below:

We currently have tutorials on the following topics:

**Basic usage**: Illustrates basic usage of**lipyphilic**, including how to store results for later usage.Also shows how to assign lipids to leaflets, which is required for many other analyses.**Flip-flop rate**: Shows how to use**lipyphilic**to calculate the rate of cholesterol flip-flop, as well asidentify the frames at which each flip-flop event begins and ends.**Local lipid environments**: Illustrates how to determine the local lipid environment of each lipidover time, as well as the enrichment/depletion index.**Lipid domains**: Shows how to calculate the largest cluster of specific lipids over time. Examplesinclude finding the largest ganglioside cluster in a neuronal plasma membrane and identifyingthe largest domain of L_{o}lipids in a phase separated membrane.**Interleaflet registration**: This notebook shows how to calculate the interleaflet registration overtime. The example shows how to calculate the registration of L_{o}lipids across leaflets.**Lateral diffusion**: Illustrates how to perform “nojump” trajectory unwrapping with LiPyphilic,then use the unwrapped coordinates to calculate the mean-squared displacement and lateraldiffusion coefficient of lipids in a membrane.**Coarse-grained lipid order parameter**: Shows how to calculate the coarse-grained orderparameter, and how to create a two-dimensional projection of these values onto the membraneplane.**Projection plots**: Shows how to create two-dimensional projections of arbitrary lipid propertiesonto the membrane plane. Examples include projecting local membrane thicknesses calculatedonto the membrane plane.**Potential of mean force (PMF)**: This notebook illustrates how to use**lipyphilic**to calculate theheight and orientation of sterols in a membrane, and subsequently plot the two-dimensionalPMF of sterol height and orientation.**Hidden Markov Models (HMM)**: Learn how to use the output of**lipyphilic**to construct HMMswith HMMLearn. We will create a HMM based on lipid thicknesses to detect L_{o}and L_{d}lipids in aphase separated membrane. The output from this is can be used as input to otheranalyses in**lipyphilic**, such as calculating interleaflet registration or local lipid environments.