Package: SplineDV
Type: Package
Title: Differential Variability (DV) analysis for single-cell RNA
        sequencing data. (e.g. Identify Differentially Variable Genes
        across two experimental conditions)
Description: A spline based scRNA-seq method for identifying differentially variable (DV) genes across two experimental conditions. Spline-DV constructs a 3D spline from 3 key gene statistics: mean expression, coefficient of variance, and dropout rate. This is done for both conditions. The 3D spline provides the “expected” behavior of genes in each condition. The distance of the observed mean, CV and dropout rate of each gene from the expected 3D spline is used to measure variability. As the final step, the spline-DV method compares the variabilities of each condition to identify differentially variable (DV) genes.
Version: 1.0.0
Authors@R: c(
    person(given = "Shreyan", family = "Gupta", email = "xenon8778@tamu.edu", role = c("aut", "cre"), comment = c(ORCID = '0000-0002-1904-9862')),
    person(given = "James", family = "Cai", role = "aut", comment = c(ORCID = '0000-0002-8081-6725')))
BugReports: https://github.com/Xenon8778/SplineDV/issues
URL: https://github.com/Xenon8778/SplineDV
License: GPL-2
Encoding: UTF-8
biocViews: Software, SingleCell, Sequencing, DifferentialExpression,
        RNASeq, GeneExpression, Transcriptomics, FeatureExtraction
Depends: R (>= 3.5.0)
Imports: plotly, dplyr, scuttle, methods, Biobase, BiocGenerics,
        S4Vectors, sparseMatrixStats, SingleCellExperiment,
        SummarizedExperiment, Matrix (>= 1.6.4), utils
Suggests: knitr, DelayedMatrixStats, rmarkdown, BiocStyle, ggplot2,
        ggpubr, MASS, scales, scRNAseq, testthat (>= 3.0.0)
VignetteBuilder: knitr
RoxygenNote: 7.3.2
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/SplineDV
git_branch: RELEASE_3_21
git_last_commit: 7ceb6eb
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
NeedsCompilation: no
Packaged: 2025-04-16 04:00:48 UTC; biocbuild
Author: Shreyan Gupta [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-1904-9862>),
  James Cai [aut] (ORCID: <https://orcid.org/0000-0002-8081-6725>)
Maintainer: Shreyan Gupta <xenon8778@tamu.edu>
Built: R 4.5.0; ; 2025-04-16 15:37:44 UTC; windows
