Curator Dashboard

Web-based application for analyzing oligonucleotides. Analysis proceeds after the sequence has been entered and the calculations modified based on target type, oligo concentration, sodium ion concentration, magnesium ion concentration, and dNTP concentration.

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• SciCrunch
• 17 years ago - by Anonymous

A software package to facilitate the use of statistical learning on NeuroImaging data. Namely NiLearn leverages the scikit-learn Python toolbox for multivariate statistics with applications such as predictive modelling, classification, decoding, or connectivity analysis.

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• SciCrunch
• 14 years ago - by Anonymous

Software package that permits the user to combine raw data of different microarray platforms into one virtual array. It consists of several functions that act subsequently in a semi-automatic way. Doing as much of the data combination and letting the user concentrate on analyzing the resulting virtual array.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for nucleic acid folding and hybridization prediction. It has capabilities to predict folding for single-stranded RNA or DNA through a combination of free energy minimization, partition function calculations and stochastic sampling. The program runs on Unix and Linux platforms as well as Mac OS X and Windows.

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• SciCrunch
• 17 years ago - by Anonymous

Software for stepwise normalization functions for cDNA microarray data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for robust estimation of cDNA microarray intensities with replicates. It uses a Bayesian hierarchical model for the robust estimation. Outliers are modeled explicitly using a t-distribution, and the model also addresses classical issues such as design effects, normalization, transformation, and nonconstant variance.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software application (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

Software package that contains the function to assess the batch sourcs by fitting all sources as random effects including two-way interaction terms in the Mixed Model (depends on lme4 package) to selected principal components, which were obtained from the original data correlation matrix. This package accompanies the book Batch Effects and Noise in Microarray Experiements, chapter 12.

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• SciCrunch
• 13 years ago - by Anonymous

Software to detect differential expression in microarray and proteomics datasets. Its use has been shown to improve the detection of differentially expressed genes or proteins in these datasets.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that allows to detect and correct for spatial and intensity biases with two-channel microarray data. The normalization method implemented in this package is based on robust neural networks fitting.

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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 data transformation for meta-analysis of microarray Data: Transformation of gene expression data to signed probability scale (MCMC/EM methods) and combined differential expression on raw scale: Weighted Z-score after stabilizing mean-variance relation within platform.

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• SciCrunch
• 13 years ago - by Anonymous

A multivariate quality assessment software for microarrays based on quality control (QC) reports. The Mahalanobis distance of an array's quality attributes is used to measure the similarity of the quality of that array against the quality of the other arrays. Then, arrays with unusually high distances can be flagged as potentially low-quality.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that uses functions to handle and analyze cDNA microarray data.

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• SciCrunch
• 13 years ago - by Anonymous

Software library that contains functions to investigate links between differential gene expression and the chromosomal localization of the genes. It is motivated by the common observation of phenomena involving large chromosomal regions in tumor cells. MACAT is the implementation of a statistical approach for identifying significantly differentially expressed chromosome regions.

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• SciCrunch
• 13 years ago - by Anonymous

A regression based software package to find genes for which there are significant gene expression profile differences between experimental groups in time course microarray experiments.

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• SciCrunch
• 13 years ago - by Anonymous

Software that graphically displays correlation in microarray data that is due to insufficient normalization.

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• SciCrunch
• 13 years ago - by Anonymous

Software to identify differentially expressed genes. A hierarchical Bayesian approach is used, and the hyperparameters are estimated using empirical Bayes.

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• SciCrunch
• 13 years ago - by Anonymous

An easy to use software tool for dual color microarray data. Its GUI-Tk based environment lets any non-experienced user perform a basic, but not simple, data analysis just following a wizard. In addition it provides some tools for the developer.

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• SciCrunch
• 13 years ago - by Anonymous

Preprocessing and analysis software for single microarrays and microarray batches.

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• SciCrunch
• 13 years ago - by Anonymous

Software using a model-based technique for summarizing high-density oligonucleotide array data at probe level for Affymetrix GeneChips. It is based on a factor analysis model for which a Bayesian maximum a posteriori method optimizes the model parameters under the assumption of Gaussian measurement noise.

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• SciCrunch
• 13 years ago - by Anonymous