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Analysis Tools

  • AdaJoint

    A powerful gene-based test via variable selection for genome-wide association studies.

  • Adaptive Rank Truncated Product (ARTP) 2.0.2

    ARTP (Adaptive Rank Truncated Product) version 2.0.2 is an R package for analyzing pre-defined genetic pathway based on a genetic association study. The outcome can be either continuos or binary (case/control).

  • Age Period Cohort Analysis Webtool

    A panel of easy-to-interpret estimable APC functions and corresponding Wald tests in R code that can be accessed through a user-friendly Web tool.

  • Association analysis based on SubSETs

    A subset-based approach improves power and interpretation for combined analysis of genetic assocation studies of heterogeneous traits.

  • BaDGE (Bayesian model for Detecting Gene Environment interaction)

    Bayesian model for Detecting Gene Environment interaction

  • Bayesian Subset Regression (BSR)

    BSR (Bayesian Subset Regression) is an R package that implements the Bayesian subset modeling procedure for high-dimensional generalized linear models.

  • CBRM

    An R package for testing Calibration of Binary Risk Model (CBRM) using different goodness-of-fit statistics

  • CNVfam

    CNVfam is a software package for jointly detecting copy number variations (CNV) in nuclear families genotyped using the Illumina platform.

  • CompareTests

    CompareTests is an R package to estimate agreement and diagnostic accuracy statistics for two diagnostic tests when one is conducted on only a subsample of specimens. A standard test is observed on all specimens.

  • CRaVe

    Software package designed to perform a range of association tests between sets of SNPs and a phenotype.

  • Extremely small Pvalue Evaluation for Resampling-based Test

    This is a R package for rapid evaluation of extremely small p-value for resampling-based test (EXPERT).

  • Genetic Analysis of Case-Control Data - R package

    CGEN (Case-control.Genetics) is an R package for analyzing genetic data on case-control samples, with particular emphasis on novel methods for detecting Gene-Gene and Gene-Environment interactions.

  • INPower

    IN.power is an R package for estimating the number of susceptibility SNPs and power of future studies.

  • Interactive Radioepidemiological Computer Program (IRCP)

    Background explanation of the Interactive Radioepidemiological Computer Program

  • KinCohort

    Different approaches for handling varied error structures in studies of irradiated populations

  • MultAssoc

    MultiAssoc is a MATLAB software package for test of association of a disease with a group of SNPs after accounting for their interaction with another group of SNPs or environmental exposures.

  • Nested Cohort

    NestedCohort is an R software package for fitting Kaplan-Meier and Cox Models to estimate standardized survival and attributable risks for studies where covariates of interest are observed on only a sample of the cohort.

  • Power for Genetic Association Analyses (PGA)

    PGA is a software package containing algorithms and graphical user interfaces developed in Matlab for power and sample size calculation under various genetic models and statistical constraints.

  • segCNV

    SegCNV is a software package, implemented in C++, to detect germline copy number variations in SNP array data.

  • Uncertainties in Radiation Dosimetry and their Impact on Dose-Response Analyses (1997 and 2009 Workshops)

    Discussions of different approaches for handling varied error structures in studies of irradiated populations