:: DESCRIPTION
RABIT is a very efficient feature selection algorithm. It was applied to find tumor associated regulators in diverse cancer types.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Inference of transcriptional regulation in cancers.
Jiang P, Freedman ML, Liu JS, Liu XS.
Proc Natl Acad Sci U S A. 2015 Jun 23;112(25):7731-6. doi: 10.1073/pnas.1424272112.
:: DESCRIPTION
The “care” package a novel multivariate algorithm for large scale SNP selection using CAR score regression, a promising new approach for prioritizing biomarkers. CAR scores measure the correlation between the response and the Mahalanobis-decorrelated predictors. The squared CAR score is a natural measure of variable importance and provides a canonical ordering of variables. This package provides functions for estimating CAR scores, for variable selection using CAR scores, and for estimating corresponding regression coefficients. Both shrinkage as well as empirical estimators are available.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
BMC Bioinformatics. 2012 Oct 31;13:284. doi: 10.1186/1471-2105-13-284.
A novel algorithm for simultaneous SNP selection in high-dimensional genome-wide association studies.
Zuber V, Duarte Silva AP, Strimmer K.
:: DESCRIPTION
ARR (adaptive ridge regression) is an R package to detect rare variants associated with a quantitative trait using the adaptive ridge regression method.
:: DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
PLoS One. 2012;7(8):e44173. Epub 2012 Aug 28.
Adaptive ridge regression for rare variant detection.
Zhan H, Xu S.
:: DESCRIPTION
ModuleMaster is a novel application for finding cis-regulatory modules (CRMs) in sets of co-expressed genes. The application comes with a newly developed method which not only considers transcription factor binding information but also multivariate functional relationships between regulators and target genes to improve the detection of CRMs. Given only the results of a microarray and a subsequent clustering experiment, the program includes all necessary data and algorithms to perform every step to find CRMs.
::DEVELOPER
the Center for Bioinformatics Tübingen (Zentrum für Bioinformatik Tübingen, ZBIT).
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Biosystems. 2010 Jan;99(1):79-81. doi: 10.1016/j.biosystems.2009.09.005. Epub 2009 Oct 9.
ModuleMaster: a new tool to decipher transcriptional regulatory networks.
Wrzodek C, Schröder A, Dräger A, Wanke D, Berendzen KW, Kronfeld M, Harter K, Zell A.
:: DESCRIPTION
HTR is an Haplotype/Trait Association Software.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Zaykin DV, Westfall PH, Young SS, Karnoub MC, Wagner MJ, Ehm MG (2002),
“Testing association of statistically inferred haplotypes with discrete and continuous traits in samples of unrelated individuals“,
Human Heredity, 53:79-91.
:: DESCRIPTION
ROMPrev is a software suite for quantitative trait and locus-specific heritability estimation and association testing using the revised ROMP (Regression of Offspring on Mid-Parent) method.
:DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Roy-Gagnon, M.H., Mathias, R.A., Fallin, M.D., Jee, S.H., Broman, K.W., Wilson, A.F. 2008.
An extension of the regression of offspring on mid-parent to test for association and estimate locus-specific heritability: the revised ROMP method.
Ann Hum Genet. 72(Pt 1):115-25.
