Published May 9, 2023 | Version v1
Dataset Open

Images of colony growth for 224 Arabidopsis thaliana bacterial strains on 46 carbon sources

  • 1. ETH Zurich

Description

This repository contains all data necessary to score colony growth on agar plates using the software tool 'platescan' (github.com/MicrobiologyETHZ/platescan) for the strains presented in Schäfer, Pacheco, et al.

The growth of the 224 strains was split into 3 screens. Rounds 1, 2, and half of 3 comprised the core of the screen for all strains, and the second half of 3 comprised the validation set for computing the false discovery rate. The directories containing the images, as well as their corresponding metadata files, are named accordingly:

    pictures_7dps_screen_*: folders contain pictures of screening plates to assess growth on tested garbon sources. Pictures were taken 7 days after spotting strains on the plates.

    *_d7_filenames.txt: files link the picture filename to the carbon source that was tested. In addition the screening round and the plate number within the screening round is indicated.

    strain_metadata_screen*.txt: files indicate the position of the strains on the test plates [row (alphabetical), row (numbered), column (numbered)] and additional comments relevant for analysis (swarmer). Screen_nr and plate_number allow to link data to the corresponding pictures.

This repository additionally includes a script to perform downstream processing of the platescan software output,

    plate_scan_analysis.R.

and a file reporting the latescan output values that were manually overwritten due to contamination or poor image quality

    manual_correction.txt.

Files

images_platescan.zip

Files (55.2 MB)

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