Functions to visually and statistically analyze single system data.

A method that inherits the standard gene set variation analysis (GSVA) method and also provides the option to use summary statistics from any analysis (disease vs healthy, lesional side vs nonlesional side, etc..) input to define the direction of gene sets used for directional gene set score calculation for a given disease. Note to use this package, GSVA(>= 1.52.1) is needed to pre-installed. 
    Hanzelmann, S., Castelo, R., and Guinney, J. (2013) <doi:10.1186/1471-2105-14-7>.

Allows to map species richness and endemism based on stacked
    species distribution models (SSDM). Individuals SDMs can be created using a
    single or multiple algorithms (ensemble SDMs). For each species, an SDM can
    yield a habitat suitability map, a binary map, a between-algorithm variance
    map, and can assess variable importance, algorithm accuracy, and between-
    algorithm correlation. Methods to stack individual SDMs include summing
    individual probabilities and thresholding then summing. Thresholding can be
    based on a specific evaluation metric or by drawing repeatedly from a Bernoulli
    distribution. The SSDM package also provides a user-friendly interface.

Performs structured OLS (sOLS) and structured SIR (sSIR).

Species sensitivity distributions are cumulative probability
    distributions which are fitted to toxicity concentrations for
    different species as described by Posthuma et al.(2001)
    <isbn:9781566705783>. The ssdtools package uses Maximum Likelihood to
    fit distributions such as the gamma, log-logistic, log-normal and
    log-normal log-normal mixture. Multiple distributions can be averaged
    using Akaike Information Criteria.  Confidence intervals on hazard
    concentrations and proportions are produced by parametric
    bootstrapping.

Provides functions to evaluate user-defined power functions for a parameter range, and draws a sensitivity plot. It also provides a resampling procedure for semi-parametric sample size estimation and methods for adding information to a Sweave report.