Utility functions that implement and automate common sets of validation tasks. These functions are particularly useful to validate inputs, intermediate objects and output values in user-defined functions, resulting in tidier and less verbose functions.
Several service functions to be used to analyse datasets obtained from diallel experiments within the frame of linear models in R, as described in Onofri et al (2020) <DOI:10.1007/s00122-020-03716-8>.
Set of the data science tools created by various members of the Long Term Ecological Research (LTER) community. These functions were initially written largely as standalone operations and have later been aggregated into this package.
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.
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/>).
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>.
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>.
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).
Supports reading and writing sequences for different formats (currently interleaved and sequential formats for FASTA and PHYLIP'), file conversion, and manipulation (e.g. filter sequences that contain specify pattern, export consensus sequence from an alignment).
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.
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 a cross-platform command-line argument parser written purely in R with no external dependencies. It is useful with the Rscript front-end and facilitates turning an R script into an executable script.
This package provides a macro to ergonomically define an item depending on a large number of #[cfg] parameters. Structured like an if-else chain, the first matching branch is the item that gets emitted.
This package provides a macro to ergonomically define an item depending on a large number of #[cfg] parameters. Structured like an if-else chain, the first matching branch is the item that gets emitted.
RedNotebook is a modern desktop journal. It lets you format, tag and search your entries. You can also add pictures, links and customizable templates, spell check your notes, and export to plain text, HTML, Latex or PDF.
This library allows reading and writing RPM packages. It is used by the fpm tool. It is written in pure Ruby because librpm is not available on all systems and requires many dependencies.
As everyone knows, the most complex codes were composed of a mass of different kinds of parentheses (typically: lisp). This plugin will help you read these codes by showing different levels of parentheses in different colors.
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.