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ex situ characterization transmission electron microscopy tem images  (JEOL)
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open source customisable matlab based analysis toolbox  (MathWorks Inc)
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sensitivity encoding (sense) reconstruction method  (Kolster Methods)
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mcr-als gui 2.0  (Eigenvector Research Inc)
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pls toolbox 8.7.1  (Eigenvector Research Inc)
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phlip  (SourceForge net)
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SourceForge net phlip
Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="250" height="auto" />
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zen blue 2012  (Carl Zeiss)
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Carl Zeiss zen blue 2012
Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="250" height="auto" />
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paper  (Labeo Technologies Inc)
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Labeo Technologies Inc paper
Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="250" height="auto" />
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swing robotic system  (Chemspeed ag)
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Chemspeed ag swing robotic system
Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="250" height="auto" />
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vapourtec r2/r4  (Vapourtec Ltd)
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Vapourtec Ltd vapourtec r2/r4
Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="250" height="auto" />
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Image Search Results


Overview of Image Analysis Programs for Biofilm Confocal Micrographs with a Focus on Tool Scope and Selection of Relevance to Experimental Researchers <xref ref-type= a " width="100%" height="100%">

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