# -------------------------------------------- # CITATION file created with {cffr} R package # See also: https://docs.ropensci.org/cffr/ # -------------------------------------------- cff-version: 1.2.0 message: 'To cite package "gedi2" in publications use:' type: software license: MIT title: 'gedi2: Gene Expression Decomposition and Integration' version: 2.3.4 abstract: 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. Core algorithms are described in Madrigal et al. (2024) . authors: - family-names: Mikaeili Namini given-names: Arsham email: arsham.mikaeilinamini@mail.mcgill.ca - family-names: S.Najafabadi given-names: Hamed email: hamed.najafabadi@mcgill.ca repository: https://cran.r-universe.dev repository-code: https://github.com/csglab/gedi2 commit: b9c69389c9da780d083e5ec2cae576b5a07c5283 url: https://github.com/csglab/gedi2 date-released: '2026-05-09' contact: - family-names: Mikaeili Namini given-names: Arsham email: arsham.mikaeilinamini@mail.mcgill.ca