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clusterGeneration - Random Cluster Generation (with Specified Degree of Separation)

We developed the clusterGeneration package to provide functions for generating random clusters, generating random covariance/correlation matrices, calculating a separation index (data and population version) for pairs of clusters or cluster distributions, and 1-D and 2-D projection plots to visualize clusters. The package also contains a function to generate random clusters based on factorial designs with factors such as degree of separation, number of clusters, number of variables, number of noisy variables.

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6.91 score 1 stars 107 dependents 301 scripts 17k downloads

powerMediation - Power/Sample Size Calculation for Mediation Analysis

Functions to calculate power and sample size for testing (1) mediation effects; (2) the slope in a simple linear regression; (3) odds ratio in a simple logistic regression; (4) mean change for longitudinal study with 2 time points; (5) interaction effect in 2-way ANOVA; and (6) the slope in a simple Poisson regression.

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4.00 score 3 stars 2 dependents 69 scripts 509 downloads

GeneSelectMMD - Gene selection based on the marginal distributions of gene profiles that characterized by a mixture of three-component multivariate distributions

Gene selection based on a mixture of marginal distributions.

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differentialexpressionfortran

3.78 score 1 dependents 7 scripts 400 downloads

powerSurvEpi - Power and Sample Size Calculation for Survival Analysis of Epidemiological Studies

Functions to calculate power and sample size for testing main effect or interaction effect in the survival analysis of epidemiological studies (non-randomized studies), taking into account the correlation between the covariate of the interest and other covariates. Some calculations also take into account the competing risks and stratified analysis. This package also includes a set of functions to calculate power and sample size for testing main effect in the survival analysis of randomized clinical trials and conditional logistic regression for nested case-control study.

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3.76 score 2 dependents 95 scripts 943 downloads

sizepower - Sample Size and Power Calculation in Micorarray Studies

This package has been prepared to assist users in computing either a sample size or power value for a microarray experimental study. The user is referred to the cited references for technical background on the methodology underpinning these calculations. This package provides support for five types of sample size and power calculations. These five types can be adapted in various ways to encompass many of the standard designs encountered in practice.

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microarray

3.60 score 3 scripts 412 downloads

MMDvariance - Detecting Differentially Variable Genes Using the Mixture of Marginal Distributions

Gene selection based on variance using the marginal distributions of gene profiles that characterized by a mixture of three-component multivariate distributions. Please see the reference: Li X, Fu Y, Wang X, DeMeo DL, Tantisira K, Weiss ST, Qiu W. (2018) <doi:10.1155/2018/6591634>.

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bioinformaticsdifferentialexpression

1.00 score 2 scripts 154 downloads

riskPredictClustData - Assessing Risk Predictions for Clustered Data

Assessing and comparing risk prediction rules for clustered data. The method is based on the paper: Rosner B, Qiu W, and Lee MLT.(2013) <doi: 10.1007/s10985-012-9240-6>.

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1.00 score 6 scripts 156 downloads