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COnstraints Based Reconstruction and Analysis toolbox for MATLAB.
Pinello, L. et al. CRISPResso: sequencing analysis toolbox for CRISPR-Cas9 genome editing.
Image processing was also performed by commercial HCS software (Cellomics vHCS Analysis Toolbox for cellWoRx version 6.00 with the assay module CellAnalysisToolbox.V2 version 5.0, Thermo Fisher Scientific).
The measurements were carried out using the software JMicroVision v1.2.7 [Roduit N: JMicroVision: Image analysis toolbox for measuring and quantifying components of high-definition images. Version 1.2.7. http://www.jmicrovision.com (accessed 27 March 2015)].
There are some other function modules, e.g. a cis-element significance analysis toolbox for gene promoter sequences, an expression pattern search for microarray expression data so users can compare gene expression differences in various growth periods or under diverse stresses.
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As such, attention is initially placed on the importance of the development of a cardiac analysis toolbox with functionality for pathophysiological analysis of the disease.
We have also developed a soybean gene co-expression regulatory network web service, a graphical display of acyl-lipid metabolic pathways, a cis-element significance analysis toolbox, an expression pattern for positive/negative search function modules and other general tools in the database.
Overall processing and analysis was made by using HDF View, IDRISI macro-modeler to automate workflows for batch processing, ArcGIS spatial analysis toolbox and R raster package for image analysis.
aBiclustering Analysis Toolbox (BicAT) is a software platform for clustering-based data analysis that integrates various biclustering and clustering techniques in terms of a common graphical user interface [ 39].
Automated Microarray Image Analysis (AMIA) Toolbox for MatLab and Istackx are analysis tools that allow users to analyze a series of images collected by other image acquisition programs [ 58] (Krick et al., unpublished).
For quantification a MATLAB 2011b script and the software's image analysis toolbox has been used.
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