Implementing various things including functions for LaTeX tables, the Kalman filter, QQ-plots with simulation-based confidence intervals, linear regression diagnostics, web scraping, development tools, relative risk and odds rati, GARCH(1,1) Forecasting.

Correlates variation within the meta-genome to target species phenotype variations in meta-genome with association studies. Follows the pipeline described in Chaston, J.M. et al. (2014) <doi:10.1128/mBio.01631-14>.

Computes the third multivariate cumulant of either the raw, centered or standardized data. Computes the main measures of multivariate skewness, together with their bootstrap distributions. Finally, computes the least skewed linear projections of the data.

This package implements the Multi-Objective Clustering Algorithm Guided by a-Priori Biological Knowledge (MOC-GaPBK) which was proposed by Parraga-Alava, J. et. al. (2018) <doi:10.1186/s13040-018-0178-4>.

Recursively calculates mass properties (mass, center of mass, moments and products of inertia, and optionally, their uncertainties) for arbitrary decomposition trees. R. L. Zimmerman, J. H. Nakai. (2005) <https://www.sawe.org/product/paper-3360/>).

This package provides a method for obtaining nonparametric estimates of regression models with or without factor-by-curve interactions using local polynomial kernel smoothers or splines. Additionally, a parametric model (allometric model) can be estimated.

Seamlessly build and manipulate graph structures, leveraging its high-performance methods for filtering, joining, and mutating data. Ensures that mutations and changes to the graph are performed in place, streamlining your workflow for optimal productivity.

This package performs Bayesian arm-based network meta-analysis for datasets with binary, continuous, and count outcomes (Zhang et al., 2014 <doi:10.1177/1740774513498322>; Lin et al., 2017 <doi:10.18637/jss.v080.i05>).

This package implements the method described at the UCLA Statistical Consulting site <https://stats.idre.ucla.edu/r/dae/ordinal-logistic-regression/> for checking if the proportional odds assumption holds for a cumulative logit model.

Web-based interactive charts (using D3.js) for the analysis of experimental crosses to identify genetic loci (quantitative trait loci, QTL) contributing to variation in quantitative traits. Broman (2015) <doi:10.1534/genetics.114.172742>.

Detection of item-wise Differential Item Functioning (DIF) in fitted mirt', multipleGroup or bfactor models using score-based structural change tests. Under the hood the sctest() function from the strucchange package is used.

Interface for data stream clustering algorithms implemented in the MOA (Massive Online Analysis) framework (Albert Bifet, Geoff Holmes, Richard Kirkby, Bernhard Pfahringer (2010). MOA: Massive Online Analysis, Journal of Machine Learning Research 11: 1601-1604).

Collection of common methods to determine growing season length in a simple manner. Start and end dates of the vegetation periods are calculated solely based on daily mean temperatures and the day of the year.

This package provides Rcpp bindings for cpptimer', a simple tic-toc timer class for benchmarking C++ code <https://github.com/BerriJ/cpptimer>. It's not just simple, it's blazing fast! This sleek tic-toc timer class supports overlapping timers as well as OpenMP parallelism <https://www.openmp.org/>. It boasts a nanosecond-level time resolution. We did not find any overhead of the timer itself at this resolution. Results (with summary statistics) are automatically passed back to R as a data frame.

Eurostat is the statistical office of the European Union and provides high quality statistics for Europe. Large set of the data is disseminated through the Eurostat database (<https://ec.europa.eu/eurostat/web/main/data/database>). The tools are using the REST API with the Statistical Data and Metadata eXchange (SDMX) Web Services (<https://ec.europa.eu/eurostat/web/user-guides/data-browser/api-data-access/api-detailed-guidelines/sdmx2-1>) to search and download data from the Eurostat database using the SDMX standard.

It is widely documented in psychology, economics and other disciplines that socio-economic agent may not pay full attention to all available alternatives, rendering standard revealed preference theory invalid. This package implements the estimation and inference procedures of Cattaneo, Ma, Masatlioglu and Suleymanov (2020) <arXiv:1712.03448> and Cattaneo, Cheung, Ma, and Masatlioglu (2022) <arXiv:2110.10650>, which utilizes standard choice data to partially identify and estimate a decision maker's preference and attention. For inference, several simulation-based critical values are provided.

This package provides a simple single-sample gene signature scoring method that uses rank-based statistics to analyze the sample's gene expression profile. It scores the expression activities of gene sets at a single-sample level.

Rope is a refactoring library for Python. It facilitates the renaming, moving and extracting of attributes, functions, modules, fields and parameters in Python source code. These refactorings can also be applied to occurrences in strings and comments.

rpy2 is a redesign and rewrite of rpy. It is providing a low-level interface to R from Python, a proposed high-level interface, including wrappers to graphical libraries, as well as R-like structures and functions.

Check if a given package name is available to use. It checks the name's validity. Checks if it is used on GitHub', CRAN and Bioconductor'. Checks for unintended meanings by querying Wiktionary and Wikipedia.

This package provides functions and data to estimate causal dose response functions given continuous, ordinal, or binary treatments. A description of the methods is given in Galagate (2016) <https://drum.lib.umd.edu/handle/1903/18170>.

Simplifies the execution of command line interface (CLI) tools within isolated and reproducible environments. It enables users to effortlessly manage Conda environments, execute command line tools, handle dependencies, and ensure reproducibility in their data analysis workflows.

This package provides access to Dataverse APIs <https://dataverse.org/> (versions 4-5), enabling data search, retrieval, and deposit. For Dataverse versions <= 3.0, use the archived dvn package <https://cran.r-project.org/package=dvn>.

Transform output files of some tools to the microtable object of microtable class in microeco package. The microtable class is the basic class in microeco package and is necessary for the downstream microbial community data analysis.