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Software for adaptive Gene Picking for Microarray Expression Data Analysis.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that provides a set of tools for analyzing data from a factorial designed microarray experiment, or any microarray experiment for which a linear model is appropriate. The functions can be used to evaluate tests of contrast of biological interest and perform single outlier detection.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for Data Transformation and Identification of Differentially Expressed Genes in Gene Expression Arrays.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for the identification of periodically expressed genes using Fourier analysis and the statistical assessment of significance using different background models.

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• SciCrunch
• 13 years ago - by Anonymous

Wiki of chemical and preparatory experimental protocols.

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• SciCrunch
• 16 years ago - by Anonymous

A Swiss global health-care company that operates under two divisions: Pharmaceuticals and Diagnostics.

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• SciCrunch
• 14 years ago - by Anonymous

Software library that provides a graphical interface for microarray gene and exon level analysis as well as miRNA/mRNA-seq data analysis. The package was developed to simplify the use of Bioconductor tools for beginners having limited or no experience in writing R code.

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• SciCrunch
• 13 years ago - by Anonymous

Software R package for Gaussian Process Ranking and Estimation of Gene Expression time-series. The software fits two Gaussian processes (GPs) with an radial basis function (RBF) (+ noise diagonal) kernel on each profile. One GP kernel is initialized wih a short lengthscale hyperparameter, signal variance as the observed variance and a zero noise variance. It is optimized via scaled conjugate gradients (netlab). A second GP has fixed hyperparameters: zero inverse-width, zero signal variance and noise variance as the observed variance. The log-ratio of marginal likelihoods of the two hypotheses acts as a score of differential expression for the profile. Comparison via receiver operating characteristic curves (ROC curves) is performed against Bayesian hierarchical model for the analysis of time-series (BATS) (Angelini et.al, 2007).

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• SciCrunch
• 13 years ago - by Anonymous

A Java toolkit designed to convert DNA and RNA sequences into k-mers.

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• SciCrunch
• 12 years ago - by Anonymous

Software package to conduct transcriptome analysis for tiling arrays based on fast wavelet-based functional models.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software package for quality assessment and to identify differentially expressed genes in the Affymetrix gene expression data.

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• SciCrunch
• 13 years ago - by Anonymous

R software package providing a Graphical User Interface for analysis of Affymetrix microarray data, using the limma package (Linear Models for MicroArray data). While not as powerful as limma to the expert user, it offers a simple point-and-click interface to many of the commonly-used limma and affy functions. You need to have R 1.9.0 or later, Tcl/Tk 8.3 or later (ActiveTcl for Windows, Tcl/Tk Source for Linux/Unix, or X11 Tcl/Tk for MacOSX) and the limma, affylmGUI, and tkrplot R packages. It has been succesfully tested on Windows 2000, Windows XP, RedHat/Fedora Linux, and on Mac OSX with X11.

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• SciCrunch
• 13 years ago - by Anonymous

Software for fitting probe-level models and tools using these models. Probe-level models (PLM) based quality assessment tools.

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• SciCrunch
• 13 years ago - by Anonymous

Software package to create a QC report for an AffyBatch object. The report is intended to allow the user to quickly assess the quality of a set of arrays in an AffyBatch object.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that supports the application of diverse quality metrics to AffyBatch instances, summarizing these metrics via PCA, and then performing parametric outlier detection on the PCs to identify aberrant arrays with a fixed Type I error rate.

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• SciCrunch
• 13 years ago - by Anonymous

Blood biobank for the Partners research program, which investigates the affects of genes, lifestyle and environment on human health.

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• SciCrunch
• 16 years ago - by Anonymous

Software functions for performing print-run and array level quality assessment.

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• SciCrunch
• 13 years ago - by Anonymous

Software package to read bead-level data (raw TIFFs and text files) output by BeadScan as well as bead-summary data from BeadStudio. Methods for quality assessment and low-level analysis are provided.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for quality assessment and to detect differentially expressed genes for the Affymetrix GeneChips, including both 3' -arrays and gene 1.0-ST arrays. The package generates comprehensive analysis reports in HTML format. Hyperlinks on the report page will lead to a series of QC plots, processed data, and differentially expressed gene lists. Differentially expressed genes are reported in tabular format with annotations hyperlinked to online biological databases.

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• SciCrunch
• 13 years ago - by Anonymous

Light-weight software package for normalization and visualization of microarray data using only basic R data types. Software can be used standalone, be utilized in other packages, or be wrapped up in higher-level classes.

• Resource
• SciCrunch
• 13 years ago - by Anonymous