To investigate the functional characteristics of selected SNPs and their vicinity genomic region. Linked SNPs in moderate to high linkage disequilibrium (e.g. r2>0.50) with the corresponding index SNPs will be selected for further analysis.

The goal of tidyheatmaps is to simplify the generation of publication-ready heatmaps from tidy data. By offering an interface to the powerful pheatmap package, it allows for the effortless creation of intricate heatmaps with minimal code.

The biodbUniprot library is an extension of the biodb framework package. It provides access to the UniProt database. It allows to retrieve entries by their accession number, and run web service queries for searching for entries.

Offers a set of autoplot methods to visualize tree-like structures (e.g., hierarchical clustering and classification/regression trees) using ggtree'. You can adjust graphical parameters using grammar of graphic syntax and integrate external data to the tree.

This package implements exact and approximate methods for singular value decomposition and principal components analysis, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Where possible, parallelization is achieved using the BiocParallel framework.

This R package enables the user to read pfam predictions into R. Most human protein domains exist as multiple distinct variants termed domain isotypes. This R package enables the identification and classification of such domain isotypes from pfam data.

This is a collection of utility functions for Seurat. These functions allow the automation and multiplexing of plotting, 3D plotting, visualization of statistics & QC, interaction with the Seurat object. Some functionalities require functions from CodeAndRoll and MarkdownReports libraries.

This package provides an improved implementation (based on k-nearest neighbors) of the density peak clustering algorithm, originally described by Alex Rodriguez and Alessandro Laio (Science, 2014 vol. 344). It can handle large datasets (> 100,000 samples) very efficiently.

This package implements multiple performance measures for supervised learning. It includes over 40 measures for regression and classification. Additionally, meta information about the performance measures can be queried, e.g. what the best and worst possible performances scores are.

UpSet plots are an improvement over Venn Diagram for set overlap visualizations. Striving to bring the best of the UpSetR and ggplot2, this package offers a way to create complex overlap visualisations, using simple and familiar tools.

This package extends Ivy by showing more information in the minibuffer for each candidate. It adds columns showing buffer modes, file sizes, docstrings, etc. If emacs-all-the-icons is installed, it can show icons as well.

Generate code for use with the Optical Mark Recognition free software Auto Multiple Choice (AMC). More specifically, this package provides functions that use as input the question and answer texts, and output the LaTeX code for AMC.

Data processing tools to compute the rectified, integrated and the averaged EMG. Routines for automatic detection of activation phases. A routine to compute and plot the ensemble average of the EMG. An EMG signal simulator for general purposes.

This package contains all the necessary tools to process audio recordings of various formats (e.g., WAV, WAC, MP3, ZC), filter noisy files, display audio signals, detect and extract automatically acoustic features for further analysis such as classification.

Density, distribution function, quantile function and random generation for the Generalized Binomial Distribution. Functions to compute the Clopper-Pearson Confidence Interval and the required sample size. Enhanced model for burn-in studies, where failures are tackled by countermeasures.

This package provides a collection of various R functions for the purpose of Luminescence dating data analysis. This includes, amongst others, data import, export, application of age models, curve deconvolution, sequence analysis and plotting of equivalent dose distributions.

Includes functions implementing the conditionally optimal matching algorithm, which can be used to generate matched samples in designs with multiple groups. The algorithm is described in Nattino, Song and Lu (2022) <doi:10.1016/j.csda.2021.107364>.

Collection of stepwise procedures to conduct multiple hypotheses testing. The details of the stepwise algorithm can be found in Romano and Wolf (2007) <DOI:10.1214/009053606000001622> and Hsu, Kuan, and Yen (2014) <DOI:10.1093/jjfinec/nbu014>.

This package provides a collection of helper functions for forming bootstrapping confidence intervals and examining bootstrap estimates in structural equation modelling. Currently supports models fitted by the lavaan package by Rosseel (2012) <doi: 10.18637/jss.v048.i02>.

Implementation of the transformation of the Mean Opinion Scores (MOS) to be used before applying the rank based statistical techniques. The method and its necessity is described in: Babak Naderi, Sebastian Möller (2020) <arXiv:2004.11490>.

This package provides a plug-in for the text mining framework tm to support text mining in a distributed way. The package provides a convenient interface for handling distributed corpus objects based on distributed list objects.

Builds tables with customizable rows. Users can specify the type of data to use for each row, as well as how to handle missing data and the types of comparison tests to run on the table columns.

Organizational framework for web development in R including functions to serve static and dynamic content via HTTP methods, includes the html5 package to create HTML pages, and offers other utility functions for common tasks related to web development.

This package provides functions for working with magnetic resonance images. It supports reading and writing of popular file formats (DICOM, Analyze, NIfTI-1, NIfTI-2, MGH); interactive and non-interactive visualization; flexible image manipulation; metadata and sparse image handling.