https://arshammik.r-universe.devRecent package updates in arshammikR-universehttps://github.com/arshammik.pnghttps://arshammik.r-universe.devMon, 05 Oct 2026 09:26:31 GMTarsham.mikaeilinamini@mail.mcgill.ca (Arsham Mikaeili Namini)A memory-efficient implementation for integrating gene expression data from single-cell RNA sequencing experiments. Uses a C++ backend with thin R wrappers to enable analysis of large-scale single-cell datasets. The package supports multiple data modalities including count matrices, paired data (splicing, RNA velocity, CITE-seq), and binary indicators. It implements a latent variable model with block coordinate descent optimization for dimensionality reduction and batch effect correction. The method is described in Mikaeili Namini et al. (2026) <doi:10.1093/bioinformatics/btag334>, building on the original 'GEDI' model of Madrigal et al. (2024) <doi:10.1038/s41467-024-50963-0>.https://github.com/r-universe/csglab/actions/runs/37341114523Mon, 05 Oct 2026 09:26:31 GMTgedi22.3.6successhttps://csglab.r-universe.devhttps://github.com/csglab/gedi2arsham.mikaeilinamini@mail.mcgill.ca (Arsham Mikaeili Namini)Provides analysis of high-dimensional single-cell splicing data. Offers a framework to extract and work with ratio-based data structures derived from single-cell RNA sequencing experiments. Provides both a modern 'R6' object-oriented interface and direct matrix manipulation functions. Core functionalities are implemented in 'C++' via 'Rcpp' to ensure high performance and scalability on large datasets.https://github.com/r-universe/csglab/actions/runs/40661344882Thu, 30 Jul 2026 14:58:05 GMTsplikit2.3.3successhttps://csglab.r-universe.devhttps://github.com/csglab/splikitmethods.Rmdmethods.htmlMethods Overview2026-05-09 02:07:422026-07-28 19:54:09splikit_manual.Rmdsplikit_manual.htmlSplikit Manual for Single-Cell Splicing Analysis2025-08-10 05:06:442026-07-28 19:54:09STARsolo_guide.RmdSTARsolo_guide.htmlSTARsolo Processing Guide for Splicing Analysis2025-08-10 05:06:442025-08-10 05:06:44