Curator Dashboard

Software program for visualization and statistical analysis of microarray-based comparative genomic hybridization (array-CGH) data. The program has preprocessing facilities, tools for graphical exploration of individual arrays or groups of arrays, and tools for statistical identification of regions of amplification and deletion.

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• SciCrunch
• 13 years ago - by Anonymous

Tool which can be used to identify novel miRNA gene candidates in the human genome.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for importing data from Illumina SNP experiments and performing copy number calculations and reports.

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• SciCrunch
• 13 years ago - by Anonymous

Software for ultra-fast base-calling of second-generation sequencing data by blind deconvolution.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that contains functions and classes that are needed by arrayCGH packages.

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• SciCrunch
• 13 years ago - by Anonymous

Software package for dimension Reduction for Array CGH Data with Minimal Information Loss.

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• SciCrunch
• 13 years ago - by Anonymous

A software application PDF reader which provides a modified method of reading scientific papers. Different programs are available with additional information concerning the PDF, including Altimetric, Mendeley, and SHERPA/RoMEO. Related, open access articles can be saved directly from Utopia Docs and terms within the PDF can be directly searched, with results appearing within the program.

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• SciCrunch
• 17 years ago - by Anonymous

Software package for detection of copy number variants (CNV) from exome sequencing samples, including unpaired samples. The package implements a hidden Markov model which uses positional covariates, such as background read depth and GC-content, to simultaneously normalize and segment the samples into regions of constant copy count.

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• SciCrunch
• 13 years ago - by Anonymous

Software package to load, manipulate, and plot copynumber and BAF data by providing classes similar to ExpressionSet for copy number analysis. The class extends ExpressionSet by adding a locData slot for a RangedData or GRanegs object. This object contains feature genome location data and provides for efficient subsetting on genome location. CNSet and BAFSet extend GenoSet and require assayData matrices for Copy Number (cn) or Log-R Ratio (lrr) and B-Allele Frequency (baf) data. Implements and provides convenience functions for processing of copy number and B-Allele Frequency data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package to normalize of Affymetrix GeneChip Human Mapping 100K and 500K set.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that estimates the DNA copy number profile to detect regions with copy number changes.

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• SciCrunch
• 13 years ago - by Anonymous

Non-profit organization based out of Seattle, Washington that conducts medical research on autoimmune disease.

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• SciCrunch
• 15 years ago - submitted by Stephen Larson

Software package for quantile smoothing and genomic visualization of array data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package providing functions and classes for DNA copy number profiling of array-CGH data.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that contains classes and methods useful for storing, visualizing and analyzing high density SNP data. Originally developed from the SNPscan web-tool, SNPchip utilizes S4 classes and extends other open source R tools available at Bioconductor, including the R packages Biobase and oligo. This has numerous advantages, including the ability to build statistical models for SNP-level data that operate on instances of the class, and to communicate with other R packages that add additional functionality.

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• SciCrunch
• 13 years ago - by Anonymous

Software package using Hidden Markov Models for characterizing chromosomal alterations in high throughput SNP arrays.

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• SciCrunch
• 13 years ago - by Anonymous

Software package that enables the detection of driver chromosomal imbalances including loss of heterozygosity (LOH) from array comparative genomic hybridization (aCGH) data. It performs a joint segmentation of a dataset and uses a statistical framework to distinguish between driver and passenger mutation. VegaMC has been implemented so that it can be immediately integrated with the output produced by PennCNV tool. In addition, it produces in output two web pages that allows a rapid navigation between both the detected regions and the altered genes. In the web page that summarizes the altered genes, the link to the respective Ensembl gene web page is reported.

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• SciCrunch
• 13 years ago - by Anonymous

Software tool as mixed model normalization method for metabolomics data.Uses normalization approach based on mixed model, with simultaneous estimation of correlation matrix.

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• SciCrunch
• 12 years ago - by Anonymous

Software suite to analyze data from high throughput sequencing of PCR amplicons, with an emphasis on normal-tumor comparison for the accurate and sensitive identification of low prevalence mutations.

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• SciCrunch
• 13 years ago - by Anonymous

Software using a f frequentist approach for estimating individual ancestry proportion.

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• SciCrunch
• 13 years ago - by Anonymous