Image processing software tools | Microarray data analysis
The first step in microarray data analysis consists of image processing intending to estimate the ratio of the fluorescence intensities in two color channels at each spot. This ratio reflects differential gene (cDNA) or protein expression or change in DNA copy number (CGH) between two compared samples.
Provides statistical tools for visualization and analysis of microarrays. GeneSpring GX offers an interactive environment that promotes investigation and enables understanding of Transcriptomics, Genomics, Metabolomics and Proteomics data within a biological context. It can be used for expression arrays, miRNA, exon arrays and genomics copy number data. It also allows to identify targets of interest that are both statistically and biologically meaningful.
Allows users to collect, manage, and effectively analyze data from microarray experiments. TM4 Microarray Software Suite is composed of a set of four tools: Madam, Spotfinder, Midas and MeV. It offers functions that allow users to record their experimental parameters and data; permit researchers to load the output of a microarray scanning operation and to adjust the placement of each grid cell manually allow for accurate spot detection.
Scans and processes up automatically to 100 microarray raw image files. Agilent's Feature Extraction is a software that locates and places microarray grids, rejects aberrant pixels, accurately determines intensities and characteristic ratios, marks aberrant pixels and calculates statistical confidences. This commercial application is compatible with some non-Agilent scanners. In this software, application-specific QC reports provide metrics targeted to the experiment.
Delivers data and automation to quantify, normalize and analyze experiments. ImaGene is a leading edge microarray image analysis software. It analyzes every spot and the array itself to determine the quality of the array image or individual spots. An optional batch-processing module allows to process any number of images. The software offers flexible options which can provide multiple data normalization options including lowess on entire array, sub-grid or control spots or differential regulation analysis.
An automatic and easy-to-use general image analysis software. The main functions include automation for fast and consistent results, advanced algorithms for delivery of accurate results, editing tools to crop, rotate, and filter images, support of multicolor files and optional security modules, designed to support and control traceability of data.
Serves for microarray image analysis. Spotfinder is a program that uses an algorithm to identify the spots in the array and provide quantification of expression levels. Moreover, this program is part of TM4 Microarray software.