Curator Dashboard

A Hadoop based genome assembler for assembling large genomes in the clouds.

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• SciCrunch
• 13 years ago - by Anonymous

Software providing a method that automatically determines suited overlaps cutoffs according to the contextual coverage, reducing thus the need for manual parameterization.

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• SciCrunch
• 13 years ago - by Anonymous

A software to assemble short reads of next generation sequencing technologies at low coverage.

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• SciCrunch
• 13 years ago - by Anonymous

Software for a de novo genome assembler implemented in C++.

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• SciCrunch
• 13 years ago - by Anonymous

Software application (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

Site for collection and distribution of clinical data related to genetic analysis of drug abuse phenotypes. Anonymous data on family structure, age, sex, clinical status, and diagnosis, DNA samples and cell line cultures, and data derived from genotyping and other genetic analyses of these clinical data and biomaterials, are distributed to qualified researchers studying genetics of mental disorders and other complex diseases at recognized biomedical research facilities. Phenotypic and Genetic data will be made available to general public on release dates through distribution mechanisms specified on website.

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• SciCrunch
• 17 years ago - by Anonymous

A genetic sequence assembler capable of assembling millions of small nucleotide reads even in the presence of sequencing error.

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• SciCrunch
• 13 years ago - by Anonymous

Software for a probabilistic framework for the discovery of single nucleotide variants in WGSS data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 13 years ago - by Anonymous

A web-based GUI distributed computational pipeline, provides all-in-one functionality including human transcriptome quantification and the typical endogenous RNA-Sequencing analysis along with the investigation of exogenous sequences.

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• SciCrunch
• 13 years ago - by Anonymous

Commercial neuroimaging software package for multi-modal data analysis and management. It has been programmed in C++ with efficient statistical, numerical, and image processing routines. It supports parallelized basic math routines on all platforms and uses modern multi-core, multi-processor hardware for demanding computational routines.

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• SciCrunch
• 17 years ago - by Anonymous

A computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression of eukaryotes, prokaryotes, as well as organisms with no available genome reference sequence.

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• SciCrunch
• 13 years ago - by Anonymous

A computer program for phasing observed genotypes and imputing missing genotypes.

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• SciCrunch
• 13 years ago - by Anonymous

A fast and sensitive variant-caller for inferring single-nucleotide variants (SNVs) from high-throughput sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

A software tool for prioritizing candidate variants in family-based studies of inherited disease.

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• SciCrunch
• 13 years ago - by Anonymous

A suite of software tools that enables integrative SNP analysis in next generation sequencing data with large cohorts.

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• SciCrunch
• 13 years ago - by Anonymous

PhenomicDB is a multi-organism phenotype-genotype database including human, mouse, fruit fly, C.elegans, and other model organisms. The inclusion of gene indices (NCBI Gene) and orthologs (same gene in different organisms) from HomoloGene allows to compare phenotypes of a given gene over many organisms simultaneously. PhenomicDB contains data from publicly available primary databases: FlyBase, Flyrnai.org, WormBase, Phenobank, CYGD, MatDB, OMIM, MGI, ZFIN, SGD, DictyBase, NCBI Gene, and HomoloGene. We brought this wealth of data into a single integrated resource by coarse-grained semantic mapping of the phenotypic data fields, by including common gene indexes (NCBI Gene), and by the use of associated orthology relationships (HomoloGene). PhenomicDB is thought as a first step towards comparative phenomics and will improve the understanding of the gene functions by combining the knowledge about phenotypes from several organisms. It is not intended to compete with the much more dedicated primary source databases but tries to compensate its partial loss of depth by linking back to the primary sources. The basic functional concept of PhenomicDB is an integrated meta-search-engine for phenotypes. Users should be aware that comparison of genotypes or even phenotypes between organisms as different as yeast and man can have serious scientific hurdles. Nevertheless finding that the phenotype of a given mouse gene is described as ��similar to psoriasis�� and at the same time that the human ortholog has been described as a gene causing skin defects can lead to novelty and interesting hypotheses. Similarly, a gene involved in cancer in mammalian organisms could show a proliferation phenotype in a lower organism such as yeast and thus, give further insights to a researcher.

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• SciCrunch
• 17 years ago - by Anonymous

Software designed to detect single nucleotide variants from next generation sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

Software tool to detect differential alternative splicing events from RNA-Seq data. Calculates P value and false discovery rate that difference in isoform ratio of gene between two conditions exceeds given user defined threshold. Can automatically detect and analyze alternative splicing events corresponding to all major types of alternative splicing patterns. Handles replicate RNA-Seq data from both paired and unpaired study design.

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• SciCrunch
• 13 years ago - by Anonymous

Software for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data.

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• SciCrunch
• 13 years ago - by Anonymous

It consists of two modules - a database of regulatory interactions based on literature and an expertly curated database of transcription factor binding sites. The literature based information in RegTransBase is a manually curated database of regulatory interactions in prokaryotes, captures the knowledge in published scientific literature using a controlled vocabulary. RegTransBase describes a large number of regulatory interactions reported in many organisms and contains various types of experimental data, in particular: * the activation or repression of transcription by an identified direct regulator * determining the transcriptional regulatory function of a protein (or RNA) directly binding to DNA or RNA * mapping or prediction of binding sites for a regulatory protein * characterization of regulatory mutations The analysis section of RegtransBase is based on a set of manually curated alignments of transcription factor binding sites and allows you to search for new binding sites and verify conservation of bindings sites across multiple species through the use of web based analysis tools.

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• SciCrunch
• 17 years ago - by Anonymous