Dataset and scripts belonging to "Inferring Bacterial Interspecific Interactions from Microcolony Growth Expansion"

<p>Dataset and corresponding analysis scripts underlying the manuscript</p> <p><strong><span>Inferring Bacterial Interspecific Interactions from Microcolony Growth Expansion</span></strong></p> <p><span>by</span></p> <p><span>Tania Miguel Trabajo¹, Isaline Guex^1,2, Manupriyam Dubey¹, Elvire Sarton-Loh&eacute;ac¹, Helena Todorov¹, Xavier Richard², Christian Mazza², Jan Roelof van der Meer^1*</span></p> <p><span>Department of Fundamental Microbiology, University of Lausanne</span></p> <p><span>Department of Mathematics, University of Fribourg</span></p> <p>&nbsp;</p> <p>Readme - main folder structure</p> <p>This dataset and corresponding scripts has six main folders. Within the main folders are further Readme-files for the content of the subfolders.</p> <p>/Colony_segmentation:&nbsp;<br>Contains the python script and instructions on how to segment a TIF set of images from time lapse, and calculate the colony expansion rates, areas and positions from the segmented .npy stack.</p> <p>/data_processing:<br>Contains the main subfolders for the segmented colonies and derived data from all experiments, the corresponding scripts, output plots or .csv tables with data shown in the paper, and a list per figure, table or supplementary on how those data were derived with the indicated scripts.</p> <p>/flow_cytometry_data:<br>Has the data and the processing of the flow cytometry quantification of cells washed from the surface of the patches for the relevant experiments shown in the paper.</p> <p>/Imaging_data:<br>Has subfolders with the individual experiments used for the paper. Subfolder will contain the .npy segmented stacked files and the derived data plus individualized local scripts.</p> <p>/LCMS_data:<br>Has the data and the processing of the growth of the mono-cultures and the swapped supernatants, and the derived LCMS tables with the peak areas in the different samples, as shown in the paper.</p> <p>/Surface_model:<br>Has the actual surface model script and the results of the various simulations.&nbsp;</p>