Provides a data-driven solution to test the assumptions of global normalization methods. Group level information about each sample (such as tumor/normal status) must be provided because the test assesses if there are global differences in the distributions between the user-defined groups.

User report

0 user reviews

0 user reviews

No review has been posted.

quantro forum

No open topic.

quantro classification

quantro specifications

Software type:
Package
Restrictions to use:
None
Programming languages:
R
Computer skills:
Advanced
Stability:
Stable
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Version:
quantro version 1.2.0
Requirements:
R (>= 3.1.3)

Publications

  • (Hicks and Irizarry, 2015) quantro: a data-driven approach to guide the choice of an appropriate normalization method. Genome biology.
    PMID: 26040460

quantro support

Maintainer

Credits

Institution(s)

Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA 02115-5450, USA; Department of Biostatistics, Harvard School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA

Link to literature

Related Normalization/differential expression tools

Most Recent Tools

Web app
Desktop app
G T A T C G C T A Differential Gene… Differential Gene Expression Interactive Visual…

DEIVA Differential Gene Expression Interactive Visual Analysis

Enables locating and identifying single or multiple genes in an immediate,…

Enables locating and identifying single or multiple genes in an immediate, interactive, and intuitive manner. DEIVA offers a unique combination of design decisions that enable inspection and analysis…

Web app
G T A T C G C T A Gene Explorer Gene Explorer

GE-mini Gene Explorer

Provides a method for displaying expression profiles of all available tumor and…

Provides a method for displaying expression profiles of all available tumor and tissue types, while allowing drilling down to detailed views for specific tissue types. Users can investigate genes of…

Desktop app
G T A T C G C T A BayesMetaSeq BayesMetaSeq

BayesMetaSeq

A Bayesian hierarchical model for RNA-seq meta-analysis and biomarker…

A Bayesian hierarchical model for RNA-seq meta-analysis and biomarker categorization by study heterogeneity. BayesMetaSeq models the RNA-seq count data and integrates information across genes and…

Desktop app
DiscriminantCut DiscriminantCut

DiscriminantCut

Explores the linear decision boundary family. DiscriminantCut is a machine…

Explores the linear decision boundary family. DiscriminantCut is a machine learning methodology for robust differential expression analysis, which can be an avenue to significantly advance research…

Most Popular Tools

Desktop app
G T A T C G C T A DESeq2 DESeq2

DESeq2

A method for differential analysis of count data, using shrinkage estimation…

A method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates. This enables a more quantitative…

16 related tools

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.