Curator Dashboard

A rapid and sensitive general-purpose k-mer search tool.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

An R-package which uses Object Oriented Data Analysis (OODA) methods to analyze taxonomic trees directly, providing tools to model, compare, and visualize populations of taxonomic tree objects.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

An R-package which uses Dirichlet-Multinomial distribution to perform formal hypothesis testing on the species abundance distribution of human microbiome data, and to calculate power and sample size requirements for human microbiome experiments.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A set of software utilities for processing and analyzing 16S rRNA genes including generating NAST alignments, chimera checking, and assembling paired 16S rRNA reads according to reference sequence homology.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A statistical software package for comparing metagenomic datasets and clinical data sets comprised of two treatment populations, with each treatment population being made up of multiple samples. It relies on a non-parametric t-test.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Algorithm for high-dimensional biomarker discovery and explanation that identifies genes, pathways, or taxa characterizing the differences between two or more biological conditions. The algorithm identifies features that are statistically different among biological classes, then performs additional tests to assess whether these differences are consistent with respect to expected biological behavior. Statistical significance and biological relevance are emphasized., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

An API and software suite for large scale data visualization and analysis.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A GUI software package to help non-expert statisticians conduct multivariate analysis methods. Various multivariate analysis methods are available, including correspondance analysis, aglomerative hierarchical clustering, related multidimensional scaling, and discriminant analysis (linear, quadratic or distance-based).

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A SEED-quality automated service that annotates complete or nearly complete bacterial and archaeal genomes across the entire phylogenetic tree. RAST can also be used to analyze draft genomes.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A tool used to screen for core gene sets as an indicator of completeness of draft genomes. The download includes a Perl script and required archaeal and bacterial core genes fasta and cluster files.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Software R package for multivariate analysis which takes into account different types of data structure. Data can be organized in groups of variable, groups of individuals, or into hierarchy of variables.

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• RRID-Legacy
• 10 years ago - by Anonymous

Open source software package for statistical programming language R to create plots based on grammar of graphics. Used for data visualization to break up graphs into semantic components such as scales and layers.

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• RRID-Legacy
• 10 years ago - by Anonymous

A national germplasm database where users can donate or request germplasms from a variety of non-human animals, including fish, invertebrates, bison, elk, pig, turkey, and yak. Germ plasm types include white blood cells, embryo, heart, larvae, liver, muscle, oocyte, ovarian tissue, DNA, red blood cells, semen, skin, sperm, spleen, testicular tissue, and blood.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

An interactome of protein-protein interactions related to schizophrenia, it contains novel PPIs predicted with the HiPPIP model. Schizophrenia associated genes are gathered from GWAS genes, historical candidates, and OMIM. Members of the scientific community can also suggest genes to add to the interactome.

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• SciCrunch
• 10 years ago - submitted by Jamie Li

Gel analysis software which can be used on a PC with TWAIN-compatible scanners without specialty equipment. Users scan or load an image which can then be calibrated. SigmaGel allows users to make lane measurements, spot measurements, and molecular weight measurements. After data analysis was completed, users can print or copy and paste data and images.

• RRID-Legacy
• 10 years ago - submitted by Edith Gonzalez

Software tool for transcriptome assembly and differential expression analysis for RNA-Seq. Includes script called cuffmerge that can be used to merge together several Cufflinks assemblies. It also handles running Cuffcompare as well as automatically filtering a number of transfrags that are likely to be artifacts. If the researcher has a reference GTF file, the researcher can provide it to the script to more effectively merge novel isoforms and maximize overall assembly quality.

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• SciCrunch
• 10 years ago - submitted by Gabrielle Pine

A software used to control and operate the Applied Biosystems 7500 Real-Time PCR system.

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• SciCrunch
• 10 years ago - submitted by Gabrielle Pine

A statistical software which can be used for basic statistics, experimental design, sample size calculations, and analysis of linear mixed models, time series, and spatial analysis.

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• SciCrunch
• 10 years ago - submitted by Gabrielle Pine

A a configurable software package for peptide and protein mass spectrometry analyses. It includes the SEQUEST search algorithm to identify separate proteins in complex mixtures, interactive navigation tools to filter and sort protein summaries, customized spectral plots, and chromatograms using the PEPMATCH and PEPMAP tools. This software also has batch processing capabilities to improve throughput by queuing up several files, and custom-build proprietary databases, index databases, and retrieve databases through a public server.

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• SciCrunch
• 10 years ago - submitted by Gabrielle Pine

A software which acquires and processes data sets, primarily through the Xcalibur system.

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• SciCrunch
• 10 years ago - submitted by Gabrielle Pine