This package provides tools for handling NetCDF metadata in data frames. The metadata is provided as relations in tabular form, to avoid having to scan printed header output or to navigate nested lists of raw metadata.

Homogeneity tests of the coefficients in panel data. Currently, only the Hsiao test for determining coefficient homogeneity between the panel data individuals is implemented, as described in Hsiao (2022), "Analysis of Panel Data" (<doi:10.1017/9781009057745>).

Perform flexible simulation studies using one or multiple computer cores. The package is set up to be usable on high-performance clusters in addition to being run locally, see examples on <https://github.com/SachaEpskamp/parSim>.

This function aims to calculate risk of developing cardiovascular disease of individual patients in next 10 years. This unofficial package was based on published open-sourced free risk prediction algorithm QRISK3-2017 <https://qrisk.org/src.php>.

This package provides advanced functionality for performing configurational comparative research with Qualitative Comparative Analysis (QCA), including crisp-set, multi-value, and fuzzy-set QCA. It also offers advanced tools for sensitivity diagnostics and methodological evaluations of QCA.

This package implements the SVM-Maj algorithm to train data with support vector machine <doi:10.1007/s11634-008-0020-9>. This algorithm uses two efficient updates, one for linear kernel and one for the nonlinear kernel.

Simultaneously infers state-dependent diversification across two or more states of a single or multiple traits while accounting for the role of a possible concealed trait. See Herrera-Alsina et al. (2019) <doi:10.1093/sysbio/syy057>.

Sequential Kalman filter for scalable online changepoint detection by temporally correlated data. It enables fast single and multiple change points with missing values. See the reference: Hanmo Li, Yuedong Wang, Mengyang Gu (2023), <arXiv:2310.18611>.

Measure text's sentiment with dictionaries and simple rules covering negations and modifiers. User-supplied dictionaries are supported, including Unicode emojis and multi-word tokens, so this package can also be used to study constructs beyond sentiment.

Implement text and sentiment analysis with texter'. Generate sentiment scores on text data and also visualize sentiments. texter allows you to quickly generate insights on your data. It includes support for lexicons such as NRC and Bing'.

This package performs sparse discriminant analysis on a combination of node and leaf predictors when the predictor variables are structured according to a tree, as described in Fukuyama et al. (2017) <doi:10.1371/journal.pcbi.1005706>.

Retrieve data from the UNESCO Institute for Statistics (UIS) API <https://api.uis.unesco.org/api/public/documentation/>. UIS provides public access to more than 4,000 indicators focusing on education, science and technology, culture, and communication.

This package provides unified syntax to write data from lazy dplyr tbl or dplyr sql query or a dataframe to a database table with modes such as create, append, insert, update, upsert, patch, delete, overwrite, overwrite_schema.

Setting layout through YAML headers in R-Markdown documents, enabling their automatic generation. Functions and methods may summarize R objects in automatic reports, for instance check-lists and further reports applied to the packages taxlist and vegtable'.

Infer alternative splicing from paired-end RNA-seq data. The model is based on counting paths across exons, rather than pairwise exon connections, and estimates the fragment size and start distributions non-parametrically, which improves estimation precision.

This package provides `dplyr` verbs (`mutate`, `select`, `filter`, etc...) supporting `S4Vectors::DataFrame` objects. Importantly, this is achieved without conversion to an intermediate `tibble`. Adds grouping infrastructure to `DataFrame` which is respected by the transformation verbs.

Raw data downloaded from GEO for the compound LY294002. Raw data is from multiple platforms from Affymetrix and Illumina. This data is used to illustrate the cross-platform meta-analysis of microarray data using the crossmeta package.

Assorted utilities for multi-modal analyses of single-cell datasets. Includes functions to combine multiple modalities for downstream analysis, perform MNN-based batch correction across multiple modalities, and to compute correlations between assay values for different modalities.

Toolbox for larger-than-memory scientific computing and visualization, providing efficient out-of-core data structures using files or shared memory, for dense and sparse vectors, matrices, and arrays, with applications to nonuniformly sampled signals and images.

The MADSEQ package provides a group of hierarchical Bayeisan models for the detection of mosaic aneuploidy, the inference of the type of aneuploidy and also for the quantification of the fraction of aneuploid cells in the sample.

This package contains R functions to predict biological variables to from placnetal DNA methylation data generated from infinium arrays. This includes inferring ethnicity/ancestry, gestational age, and cell composition from placental DNA methylation array (450k/850k) data.

SIGHTS is a suite of normalization methods, statistical tests, and diagnostic graphical tools for high throughput screening (HTS) assays. HTS assays use microtitre plates to screen large libraries of compounds for their biological, chemical, or biochemical activity.

This is a package for semi-supervised isoform detection and annotation from both bulk and single-cell long read RNA-seq data. Flames provides automated pipelines for analysing isoforms, as well as intermediate functions for manual execution.

This package provides an API for efficient .hic file data extraction with programmatic matrix access. It doesn't store the pointer data for all the matrices, only the one queried, and currently it only supports matrices.