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r-clamr
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Implementation of the Wilkinson and Ivany (2002) approach to paleoclimate analysis, applied to isotope data extracted from clams.
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2025-04-22 |
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r-clam
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Performs 'classical' age-depth modelling of dated sediment deposits - prior to applying more sophisticated techniques such as Bayesian age-depth modelling. Any radiocarbon dated depths are calibrated. Age-depth models are constructed by sampling repeatedly from the dated levels, each time drawing age-depth curves. Model types include linear interpolation, linear or polynomial regression, and a range of splines. See Blaauw (2010). <doi:10.1016/j.quageo.2010.01.002>.
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2025-04-22 |
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r-cla
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Implements 'Markovitz' Critical Line Algorithm ('CLA') for classical mean-variance portfolio optimization, see Markovitz (1952) <doi:10.2307/2975974>. Care has been taken for correctness in light of previous buggy implementations.
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2025-04-22 |
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r-cityplot
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Input: a csv-file for each database table and a controlfile describing relations between tables. Output: An extended ER diagram
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2025-04-22 |
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r-citccmst
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This package implements the approach to assign tumor gene expression dataset to the 6 CIT Colon Cancer Molecular Subtypes described in Marisa et al 2013.
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2025-04-22 |
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r-citbcmst
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This package implements the approach to assign tumor gene expression dataset to the 6 CIT Breast Cancer Molecular Subtypes described in Guedj et al 2012.
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2025-04-22 |
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r-circstats
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Circular Statistics, from "Topics in Circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.
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2025-04-22 |
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r-circnntsr
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Includes functions for the analysis of circular data using distributions based on Nonnegative Trigonometric Sums (NNTS). The package includes functions for calculation of densities and distributions, for the estimation of parameters, for plotting and more.
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2025-04-22 |
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r-cir
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Isotonic regression (IR), as well as a great small-sample improvement to IR called CIR, interval estimates for both, and additional utilities.
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2025-04-22 |
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r-ciplot
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Plot confidence interval from the objects of statistical tests such as t.test(), var.test(), cor.test(), prop.test() and fisher.test() ('htest' class), Tukey test [TukeyHSD()], Dunnett test [glht() in 'multcomp' package], logistic regression [glm()], and Tukey or Games-Howell test [posthocTGH() in 'userfriendlyscience' package]. Users are able to set the styles of lines and points. This package contains the function to calculate odds ratios and their confidence intervals from the result of logistic regression.
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2025-04-22 |
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r-cinid
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This package provides functions to compute a method for identifying the instar of Curculionid larvae from the observed distribution of the headcapsule size of mature larvae.
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2025-04-22 |
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r-cin
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Many experiments in neuroscience involve randomized and fast stimulation while the continuous outcome measures respond at much slower time scale, for example event-related fMRI. This package provide valid statistical tools with causal interpretation under these challenging settings, without imposing model assumptions.
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2025-04-22 |
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r-cim
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Produces statistical indicators of the impact of migration on the socio-demographic composition of an area. Three measures can be used: ratios, percentages and the Duncan index of dissimilarity. The input data files are assumed to be in an origin-destination matrix format, with each cell representing a flow count between an origin and a destination area. Columns are expected to represent origins, and rows are expected to represent destinations. The first row and column are assumed to contain labels for each area. See Rodriguez-Vignoli and Rowe (2018) <doi:10.1080/00324728.2017.1416155> for technical details.
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2025-04-22 |
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r-ciee
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In many studies across different disciplines, detailed measures of the variables of interest are available. If assumptions can be made regarding the direction of effects between the assessed variables, this has to be considered in the analysis. The functions in this package implement the novel approach CIEE (causal inference using estimating equations; Konigorski et al., 2018, <DOI:10.1002/gepi.22107>) for estimating and testing the direct effect of an exposure variable on a primary outcome, while adjusting for indirect effects of the exposure on the primary outcome through a secondary intermediate outcome and potential factors influencing the secondary outcome. The underlying directed acyclic graph (DAG) of this considered model is described in the vignette. CIEE can be applied to studies in many different fields, and it is implemented here for the analysis of a continuous primary outcome and a time-to-event primary outcome subject to censoring. CIEE uses estimating equations to obtain estimates of the direct effect and robust sandwich standard error estimates. Then, a large-sample Wald-type test statistic is computed for testing the absence of the direct effect. Additionally, standard multiple regression, regression of residuals, and the structural equation modeling approach are implemented for comparison.
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2025-04-22 |
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r-ciaawconsensus
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Calculation of consensus values for atomic weights, isotope amount ratios, and isotopic abundances with the associated uncertainties using multivariate meta-regression approach for consensus building.
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2025-04-22 |
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r-chromomap
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Provides interactive, configurable and elegant graphics visualization of the chromosomes or chromosome regions of any living organism allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces a special plot viz. the "chromosome heatmap" that, in addition to mapping elements, can visualize the data associated with chromosome elements (like gene expression) in the form of heat colors which can be highly advantageous in the scientific interpretations and research work. Because of the large size of the chromosomes, it is impractical to visualize each element on the same plot. However, the plot provides a magnified view for each of chromosome locus to render additional information and visualization specific for that location. You can map thousands of genes and can view all mappings easily. Users can investigate the detailed information about the mappings (like gene names or total genes mapped on a location) or can view the magnified single or double stranded view of the chromosome at a location showing each mapped element in sequential order. The package provide multiple features like visualizing multiple sets, chromosome heat-maps, group annotations, adding hyperlinks, and labelling. The plots can be saved as HTML documents that can be customized and shared easily. In addition, you can include them in R Markdown or in R 'Shiny' applications.
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2025-04-22 |
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r-choroplethrmaps
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Contains 3 maps. 1) US States 2) US Counties 3) Countries of the world.
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2025-04-22 |
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r-chords
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Maximum likelihood estimation in respondent driven samples.
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2025-04-22 |
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r-choplump
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Choplump Tests are Permutation Tests for Comparing Two Groups with Some Positive but Many Zero Responses
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2025-04-22 |
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r-choicemodelr
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Implements an MCMC algorithm to estimate a hierarchical multinomial logit model with a normal heterogeneity distribution. The algorithm uses a hybrid Gibbs Sampler with a random walk metropolis step for the MNL coefficients for each unit. Dependent variable may be discrete or continuous. Independent variables may be discrete or continuous with optional order constraints. Means of the distribution of heterogeneity can optionally be modeled as a linear function of unit characteristics variables.
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2025-04-22 |
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r-choicedes
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Design functions for DCMs and other types of choice studies (including MaxDiff and other tradeoffs).
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2025-04-22 |
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r-chillmodels
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Calculates the chilling and heat accumulation for studies of the temperate fruit trees. The models in this package are: Utah (Richardson et al., 1974, ISSN:0018-5345), Positive Chill Units - PCU (Linsley-Noaks et al., 1995, ISSN:1017-0316), GDH-A - Growing Degree Hours by Anderson et al.(1986, ISSN:0567-7572), GDH-R - Growing Degree Hours by Richardson et al.(1975, ISSN:0018-5345), North Carolina (Shaltout e Unrath, 1983, ISSN:0003-1062), Landsberg Model (Landsberg, 1974, ISSN:0305-7364), Q10 Model (Bidabe, 1967, ISSN:0031-9368), Jones Model (Jones et al., 2013 <DOI:10.1111/j.1438-8677.2012.00590.x>), Low-Chill Model (Gilreath and Buchanan, 1981, ISSN:0003-1062), Model for Cherry "Sweetheart" (Guak and Nielsen, 2013 <DOI:10.1007/s13580-013-0140-9>), Model for apple "Gala" (Guak and Nielsen, 2013 <DOI:10.1007/s13580-013-0140-9>), Taiwan Model (Lu et al., 2012 <DOI:10.17660/ActaHortic.2012.962.35>), Dynamic Model (Fishman et al., 1987, ISSN:0022-5193) adapted from the function Dynamic_Model() of the 'chillR' package (Luedeling, 2018), Unified Model (Chuine et al., 2016 <DOI:10.1111/gcb.13383>) and Heat Restriction model.
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2025-04-22 |
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r-chi2x3way
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Provides two index partitions for three-way contingency tables: partition of the association measure chi-squared and of the predictability index tau under several representative hypotheses about the expected frequencies (hypothesized probabilities).
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2025-04-22 |
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r-chi
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Light weight implementation of the standard distribution functions for the chi distribution, wrapping those for the chi-squared distribution in the stats package.
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2025-04-22 |
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r-chff
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The software matches the current history to the closest history in a time series to build a forecast.
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2025-04-22 |
