This is a package for Differential Expression Analysis of RNA-seq data. It features a variance component score test accounting for data heteroscedasticity through precision weights. Perform both gene-wise and gene set analyses, and can deal with repeated or longitudinal data.

The package converts the input in any one of character, integer, numeric, factor, or an ordered type into POSIXct (or Date) objects, using one of a number of predefined formats, and relying on Boost facilities for date and time parsing.

This package provides a %<-% operator to perform multiple, unpacking, and destructuring assignment in R. The operator unpacks the right-hand side of an assignment into multiple values and assigns these values to variables on the left-hand side of the assignment.

This package provides a simple and light-weight API for memory profiling of R expressions. The profiling is built on top of R's built-in memory profiler utils::Rprofmem(), which records every memory allocation done by R (also native code).

This package provides functions to export graphics drawn with package grid to SVG format. Extra functions provide access to SVG features that are not available in standard R graphics, such as hyperlinks, animation, filters, masks, clipping paths, and gradient and pattern fills.

The analysis and inference of faunal remains recovered from archaeological sites concerns the field of zooarchaeology. The zooaRch package provides analytical tools to make inferences on zooarchaeological data. Functions in this package allow users to read, manipulate, visualize, and analyze zooarchaeological data.

KPeg is a simple PEG library for Ruby. It provides an API as well as native grammar to build the grammar. KPeg supports direct left recursion of rules via the OMeta memoization technique.

This package provides a package used for efficient unraveling of the inherent dynamic properties of pathways. MicroRNA-mediated subpathway topologies are extracted and evaluated by exploiting the temporal transition and the fold change activity of the linked genes/microRNAs.

This package provides a series of statistical models using count generating distributions for background modelling, feature and sample QC, normalization and differential expression analysis on GeoMx RNA data. The application of these methods are demonstrated by example data analysis vignette.

This package allows a direct access to the dataset generated by the Human Cell Atlas project for further processing in R and Bioconductor, in the comfortable format of SingleCellExperiment objects (available in other formats here: http://preview.data.humancellatlas.org/).

Utility package to facilitate integration and analysis of EBI MGnify data in R. The package can be used to import microbial data for instance into TreeSummarizedExperiment (TreeSE). In TreeSE format, the data is directly compatible with miaverse framework.

Bindings to libarchive <http://www.libarchive.org> the Multi-format archive and compression library. Offers R connections and direct extraction for many archive formats including tar', ZIP', 7-zip', RAR', CAB and compression formats including gzip', bzip2', compress', lzma and xz'.

Bootstrap methods to assess accuracy and stability of estimated network structures and centrality indices <doi:10.3758/s13428-017-0862-1>. Allows for flexible specification of any undirected network estimation procedure in R, and offers default sets for various estimation routines.

Perform the Benford's Analysis to a data set in order to evaluate if it contains human fabricated data. For more details on the method see Moreau, 2021, Model Assist. Statist. Appl., 16 (2021) 73â 79. <doi:10.3233/MAS-210517>.

Smoothed lexis diagrams with Bayesian method specifically tailored to cancer incidence data. Providing to calculating slope and constructing credible interval. LC Chien et al. (2015) <doi:10.1080/01621459.2015.1042106>. LH Chien et al. (2017) <doi:10.1002/cam4.1102>.

This package contains functions to estimate the Correlation-Adjusted Regression Survival (CARS) Scores. The method is described in Welchowski, T. and Zuber, V. and Schmid, M., (2018), Correlation-Adjusted Regression Survival Scores for High-Dimensional Variable Selection, <arXiv:1802.08178>.

Accelerate Bayesian analytics workflows in R through interactive modelling, visualization, and inference. Define probabilistic graphical models using directed acyclic graphs (DAGs) as a unifying language for business stakeholders, statisticians, and programmers. This package relies on interfacing with the numpyro python package.

Computes community climate statistics for volume and mismatch using species climate niches either unscaled or scaled relative to a regional species pool. These statistics can be used to describe biogeographic patterns and infer community assembly processes. Includes a vignette outlining usage.

This package provides a wrapper for the ZEIT ONLINE Content API, available at <http://developer.zeit.de>. diezeit gives access to articles and corresponding metadata from the ZEIT archive and from ZEIT ONLINE. A personal API key is required for usage.

Programmatic interface to the Daymet web services (<http://daymet.ornl.gov>). Allows for easy downloads of Daymet climate data directly to your R workspace or your computer. Routines for both single pixel data downloads and gridded (netCDF) data are provided.

Calculate posterior modes and credible intervals of parameters of the Dixon-Simon model for subgroup analysis (with binary covariates) in clinical trials. For details of the methodology, please refer to D.O. Dixon and R. Simon (1991), Biometrics, 47: 871-881.

We present an implementation of the algorithms required to simulate large-scale social networks and retrieve their most relevant metrics. Details can be found in the accompanying scientific paper on the Journal of Statistical Software, <doi:10.18637/jss.v096.i07>.

Get open statistical data and metadata disseminated by the National Statistics Institute of Spain (INE). The functions return data frames with the requested information thanks to calls to the INE API <https://www.ine.es/dyngs/DAB/index.htm?cid=1100>.

This is an substitute for the %V and %u formats which are not implemented on Windows. In addition, the package offers functions to convert from standard calender format yyyy-mm-dd to and from ISO 8601 week format yyyy-Www-d.