No packages match

cascade - Comprehensive Analysis Suite for Cell-type specificity and Accessibility-Driven QTL Effects

Provides a hierarchical framework for systematically characterizing cell type specificity and regulatory mechanisms of molecular QTLs (molQTLs) from multiome analyses. Gene- and peak-level analyses classify eGenes and caPeaks by their cell type specificity patterns, with power-aware assessment using local false sign rates (LFSR) from multivariate adaptive shrinkage (mash) to identify likely shared but underpowered features. Variant-level analysis classifies fine-mapped variants by regulatory mechanism, with 25 mutually exclusive QTL patterns collapsing into eight mechanism categories that include three chromatin-to-expression cascade tiers.

Last updated

cpp

4.23 score 1 dependents 57 scripts

locusviz - Yet Another Locus Visualization Package in R

This package provides various functions to visualize GWAS data for a locus of interest using ggplot2.

Last updated

3.35 score 3 stars 3 scripts

grimon - Graphical interface to visualize multi-omics networks

Grimon (Graphical interface to visualize multi-omics networks) visualizes high-dimensional multi-layered data sets in three-dimensional parallel coordinates. It enables users to intuitively and interactively explore their data, helping their understanding of multiple inter-layer connections embedded in high-dimensional complex data.

Last updated

cpp

3.13 score 27 stars 1 scripts

fasthurdle - Fast Implementation of Hurdle Models

Provides fast hurdle regression models for count data using C++ implementations via 'Rcpp'. Supports the same functionality as the hurdle function in the 'pscl' package, with improved performance for large datasets.

Last updated

openblascpp

3.00 score 3 stars 11 scripts

rbcor - Read BCOR Files into R

Reads binary correlation (BCOR) files generated by LDStore into R's sparse matrix format. BCOR files store linkage disequilibrium correlation matrices in a compressed binary format.

Last updated

cpp

2.30 score 2 stars 5 scripts

WRShd - An Experimental Refactor of the Harrell-Davis Estimate Functions from R. R. Wilcox' Robust Statistics Package "WRS"

This package is an experimental refactored version of the "WRS" package, which implements R. R. Wilcox' the robust statistics functions. The package currently focuses on implementing functions related to the Harrell-Davis estimator.

Last updated

cppopenmp

2.18 score 3 stars 1 scripts

GCSanndataR - Google Cloud Storage-Backed AnnData for R

Extends the 'anndataR' package to provide Google Cloud Storage-backed AnnData functionality for R. This package allows users to work with AnnData objects stored in Google Cloud Storage without downloading the entire file, enabling efficient access to large single-cell datasets directly from the cloud.

Last updated

2.00 score 1 scripts

ccmatch - R package for optimal matching of cases to controls using network flow theory.

This package implements optimal matching of cases to controls at a given ratio by solving a minimum cost flow problem.

Last updated

cpp

1.70 score