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sphinxcontrib-versioning
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public |
Sphinx extension that allows building versioned docs for self-hosting.
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2025-04-22 |
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r-bioset
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public |
Functions to help dealing with raw data from measurements, like reading and transforming raw values organized in matrices, calculating and converting concentrations and calculating precision of duplicates / triplicates / ... . It is compatible with and building on top of some 'tidyverse'-packages.
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2025-04-22 |
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r-jcolors
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public |
Contains a selection of color palettes and 'ggplot2' themes designed by the package author.
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2025-04-22 |
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r-palr
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public |
Colour palettes for data, based on some well known public data sets.
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2025-04-22 |
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r-scico
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public |
Colour choice in information visualisation is important in order to avoid being mislead by inherent bias in the used colour palette. The 'scico' package provides access to the perceptually uniform and colour-blindness friendly palettes developed by Fabio Crameri and released under the "Scientific Colour-Maps" moniker. The package contains 24 different palettes and includes both diverging and sequential types.
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2025-04-22 |
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scripting
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public |
Python utilities for shell scripting
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2025-04-22 |
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r-waterfalls
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public |
A not uncommon task for quants is to create 'waterfall charts'. There seems to be no simple way to do this in 'ggplot2' currently. This package contains a single function (waterfall) that simply draws a waterfall chart in a 'ggplot2' object. Some flexibility is provided, though often the object created will need to be modified through a theme.
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2025-04-22 |
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r-kerasformula
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public |
Adds a high-level interface for 'keras' neural nets. kms() fits neural net and accepts R formulas to aid data munging and hyperparameter selection. kms() can optionally accept a compiled keras_sequential_model() from 'keras'. kms() accepts a number of parameters (like loss and optimizer) and splits the data into (optionally sparse) test and training matrices. kms() facilitates setting advanced hyperparameters (e.g., regularization). kms() returns a single object with predictions, a confusion matrix, and function call details.
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2025-04-22 |
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r-slim
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public |
Fits singular linear models to longitudinal data. Singular linear models are useful when the number, or timing, of longitudinal observations may be informative about the observations themselves. They are described in Farewell (2010) <doi:10.1093/biomet/asp068>, and are extensions of the linear increments model <doi:10.1111/j.1467-9876.2007.00590.x> to general longitudinal data.
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2025-04-22 |
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r-randtoolbox
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public |
Provides (1) pseudo random generators - general linear congruential generators, multiple recursive generators and generalized feedback shift register (SF-Mersenne Twister algorithm and WELL generators); (2) quasi random generators - the Torus algorithm, the Sobol sequence, the Halton sequence (including the Van der Corput sequence) and (3) some generator tests - the gap test, the serial test, the poker test. See e.g. Gentle (2003) <doi:10.1007/b97336>. The package can be provided without the rngWELL dependency on demand. Take a look at the Distribution task view of types and tests of random number generators. Version in Memoriam of Diethelm and Barbara Wuertz.
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2025-04-22 |
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r-filesstrings
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public |
This started out as a package for file and string manipulation. Since then, the 'fs' and 'strex' packages emerged, offering functionality previously given by this package (but it's done better in these new ones). Those packages have hence almost pushed 'filesstrings' into extinction. However, it still has a small number of unique, handy file manipulation functions which can be seen in the vignette. One example is a function to remove spaces from all file names in a directory.
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2025-04-22 |
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r-europepmc
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public |
An R Client for the Europe PubMed Central RESTful Web Service (see <https://europepmc.org/RestfulWebService> for more information). It gives access to both metadata on life science literature and open access full texts. Europe PMC indexes all PubMed content and other literature sources including Agricola, a bibliographic database of citations to the agricultural literature, or Biological Patents. In addition to bibliographic metadata, the client allows users to fetch citations and reference lists. Links between life-science literature and other EBI databases, including ENA, PDB or ChEMBL are also accessible. No registration or API key is required. See the vignettes for usage examples.
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2025-04-22 |
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r-rngwell
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public |
It is a dedicated package to WELL pseudo random generators, which were introduced in Panneton et al. (2006), ``Improved Long-Period Generators Based on Linear Recurrences Modulo 2'', ACM Transactions on Mathematical Software. But this package is not intended to be used directly, you are strongly __encouraged__ to use the 'randtoolbox' package, which depends on this package.
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2025-04-22 |
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r-mhadaptive
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public |
Performs general Metropolis-Hastings Markov Chain Monte Carlo sampling of a user defined function which returns the un-normalized value (likelihood times prior) of a Bayesian model. The proposal variance-covariance structure is updated adaptively for efficient mixing when the structure of the target distribution is unknown. The package also provides some functions for Bayesian inference including Bayesian Credible Intervals (BCI) and Deviance Information Criterion (DIC) calculation.
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2025-04-22 |
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r-bigstep
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public |
Selecting linear and generalized linear models for large data sets using modified stepwise procedure and modern selection criteria (like modifications of Bayesian Information Criterion). Selection can be performed on data which exceed RAM capacity.
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2025-04-22 |
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r-stapler
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public |
An implementation of Simultaneous Truth and Performance Level Estimation (STAPLE) <doi:10.1109/TMI.2004.828354>. This method is used when there are multiple raters for an object, typically an image, and this method fuses these ratings into one rating. It uses an expectation-maximization method to estimate this rating and the individual specificity/sensitivity for each rater.
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2025-04-22 |
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r-gggenes
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public |
Provides a 'ggplot2' geom and helper functions for drawing gene arrow maps.
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2025-04-22 |
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r-ggconf
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public |
A flexible interface for ggplot2::theme(), potentially saving 50% of your typing.
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2025-04-22 |
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r-rly
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public |
R implementation of the common parsing tools 'lex' and 'yacc'.
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2025-04-22 |
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r-treeman
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public |
S4 class and methods for intuitive and efficient phylogenetic tree manipulation.
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2025-04-22 |
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r-ggfocus
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public |
A 'ggplot2' extension that provides tools for automatically creating scales to focus on subgroups of the data plotted without losing other information.
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2025-04-22 |
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r-gglogo
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public |
Visualize sequences in (modified) logo plots. The design choices used by these logo plots allow sequencing data to be more easily analyzed. Because it is integrated into the 'ggplot2' geom framework, these logo plots support native features such as faceting.
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2025-04-22 |
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r-treemapify
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public |
Provides 'ggplot2' geoms for drawing treemaps.
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2025-04-22 |
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r-ggfittext
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public |
Provides 'ggplot2' geoms to fit text into a box by growing, shrinking or wrapping the text.
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2025-04-22 |
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qhull
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public |
Qhull computes the convex hull
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2025-04-22 |
