Overview¶

This package is a collection of tools to display and analyze 2D and 2D time-lapse microscopy images. In particular it makes it straightforward to create figures containing multi-channel images represented in a composite color mode as done in the popular image processing software Fiji. It also allows to easily complete such figures with standard annotations like labels and scale bars. In case of time-lapse data, the figures are turned into animations which can be interactively browsed from a Jupyter notebook, saved in standard movie formats (mp4, gif etc.) and completed with time counters. Finally, figures and animations can easily be combined into larger panels. These main functionalities are provided by the microfilm.microplot and microfilm.microanim modules.

Following the model of seaborn, microfilm is entirely based on Matplotlib and tries to provide good defaults to produce good microcopy figures out-of-the-box. It however also offers complete access to the Matplotlib structures like axis and figures underlying the microfilm objects, allowing thus for the creation of arbitrarily complex plots.