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Abbrev Avadis  +
Availability Commercial license +
CurationStatus curated  +
DefiningCitation  +
Definition An integrated platform that provides analy An integrated platform that provides analysis, management and visualization tools for next-generation sequencing data. It supports workflows for RNA-Seq, DNA-Seq, ChIP-Seq and small RNA-Seq experiments. Avadis has a built-in Gene Ontology browser to view ontology hierarchies. There are common ontology paths for multiple genes. Genes can be clustered based on ontology terms to identify functional signatures in gene expression clusters. AVADIS platform has a rich collection of data / text mining algorithms, data visualization libraries, workflow/application automation layers, and enterprise data organization functions. These functions are available as libraries that allow developers to rapidly build software prototypes, applications and off-the-shelf products. The collection of algorithms and visualizations in AVADIS grows as new applications using the platform are developed. Currently, the algorithms that AVADIS platform contains range from general purpose statistical mining and modelling algorithms, to text mining algorithms, to very application-specific algorithms for microarray / NGS data analysis, QSAR modelling and biological networks analysis. AVADIS has a collection of powerful mining algorithms like PCA, ANOVA, T-test, clustering, classification and regression methods. The range of visualizations includes most statistical and data modelling related graphing views, and very application-specific visualizations. Some of the statistical views include 2D/3D scatter plots, profile plots, heat maps, histograms and matrix plot; data modelling relevant views include dendrograms, cluster profiles, similarity images and SOM U-matrices. Application-specific views in AVADIS include pathway network views, genome browsers, chemical structure views and pipe-line views. Platform: Windows compatible, Mac OS X compatible, Linux compatible, le, Mac OS X compatible, Linux compatible,
ExampleImage Avadis.PNG +
Has role Data analysis software +, Data visualization software +, Data management software +, Software library +
Id nlx_149208  +
Is part of Strand Scientific Intelligence +
Keywords Gene expression +, Statistical analysis +, Gene Ontology +, Ontology +, Gene +, Text mining +, Statistical mining +, Modelling +, Analysis +, Microarray +, QSAR modelling +, Biological network +, PCA +, ANOVA +, T-test +, Clustering +, Classification +, Regression +, Data mining +, Visualization +, RNA-Seq +, DNA-Seq +, ChIP-Seq +, Alignment +, Next generation sequencing +, Small RNA-Seq +
Label Resource:Avadis  +
Listedby Resource:Gene Ontology Tools +, Resource:OMICtools +
Modification dateThis property is a special property in this wiki. 20 December 2014 06:52:53  +
ModifiedDate 20 December 2014  +
OldURL  +
Page has default formThis property is a special property in this wiki. Resource  +
RelatedTo Resource:GO +
SuperCategory Commercial Organization  +
Synonym Access Visualize Analyze Discover  +, Avadis NGS  +
Xref OMICS_01120  +
Categories Commercial Organization
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*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.