Journal: Data in Brief

Article Title: High throughput phenotyping dataset related to seed and seedling traits of sugar beet genotypes

doi: 10.1016/j.dib.2020.105201

Figure Lengend Snippet: Measured variables on sugar beet genotypes with the PHENOTIC platform equipments.

Article Snippet: How data were acquired , Data were acquired on the phenotyping platform PHENOTIC https://www6.inra.fr/phenotic/ ). The laboratory equipment on this platform includes: - a tomograph NSI X-50 (North Star Imaging, Minnesota, USA) - automated tools measuring germination (Multicam, ESEO, Angers, France) - automated equipment measuring heterotrophic seedling growth (Eloncam, ESEO, Angers, France) - 3D image processing: using Avizo image processing modules where the scripts were written in TCL scripting language (Ousterhout, TCL/TK) and MATLAB (The MathWorks, Inc., Natick, Massachusetts, United States). - 2D image processing of seed germination: using Fiji image processing package based on ImageJ, http://fiji.sc/ ..

Techniques:

Journal: Data in Brief

Article Title: High throughput phenotyping dataset related to seed and seedling traits of sugar beet genotypes

doi: 10.1016/j.dib.2020.105201

Figure Lengend Snippet: Specifications Table

Article Snippet: How data were acquired , Data were acquired on the phenotyping platform PHENOTIC https://www6.inra.fr/phenotic/ ). The laboratory equipment on this platform includes: - a tomograph NSI X-50 (North Star Imaging, Minnesota, USA) - automated tools measuring germination (Multicam, ESEO, Angers, France) - automated equipment measuring heterotrophic seedling growth (Eloncam, ESEO, Angers, France) - 3D image processing: using Avizo image processing modules where the scripts were written in TCL scripting language (Ousterhout, TCL/TK) and MATLAB (The MathWorks, Inc., Natick, Massachusetts, United States). - 2D image processing of seed germination: using Fiji image processing package based on ImageJ, http://fiji.sc/ ..

Techniques: Imaging

Journal: ACS Omega

Article Title: Tools of the Trade: Image Analysis Programs for Confocal Laser-Scanning Microscopy Studies of Biofilms and Considerations for Their Use by Experimental Researchers

doi: 10.1021/acsomega.2c07255

Figure Lengend Snippet: Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers a

Article Snippet: PHLIP , free, open-access, available at https://sourceforge.net/projects/phlip/ , Windows, Linux, macOS , MATLAB toolbox-based script , GUI , segmentation; biofilm volume, morphology, and surface characterization , allows batch processing; offers both manual and automated (Otsu’s Method) thresholding; multichannel analysis; biofilm spatial and temporal calculations: biovolume, substratum coverage, thickness, roughness and colocalization; offers a data conversion option (PHLIP-ML) to convert different image formats to input format; has direct connectivity to PHLIP-ML (file convertor) for Leica Systems , MATLAB-based and requires MATLAB licensing; requires preprocessing steps such as image inversion and x-section resolution.

Techniques: Selection, Fluorescence, Bacteria, Staining, Cytometry, Labeling, Cell Counting, Introduce, Filtration, Activity Assay, Software, Microscopy