Wela

A package to analyse output from aliby.

wela uses the h5 files created by aliby to generate a dataframe and save this dataframe as a text file.

With wela, you can use a Gaussian process to generate single-cell growth rates.

wela includes plotting routines for common tasks, such as kymographs and plotting single lineages for one ALCATRAS trap.

Installing

Clone the gitlab repository and install with poetry.

Getting started

There are example scripts in wela/examples.

First use

• create_tsv.py to generate a tsv (tab separated value) file of the data.

Then consult

• plot_kymograph.py to plot a kymograph
• run_gr.py to estimate single-cell growth rates.