Package: STRIDER
Type: Package
Title: Spatial Transcriptomics Deconvolution and Integration in R
Version: 1.0.0
Date: 2026-01-25
Authors@R: 
    person("Zaoqu", "Liu", 
           email = "liuzaoqu@163.com",
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-4386-2787"))
Author: Zaoqu Liu [aut, cre] (<https://orcid.org/0000-0002-4386-2787>)
Maintainer: Zaoqu Liu <liuzaoqu@163.com>
Description: STRIDER (Spatial Transcriptomics deconvolutIon and
        integration in R) provides comprehensive tools for analyzing
        spatial transcriptomics data. The package implements topic
        modeling based deconvolution using Latent Dirichlet Allocation
        (LDA) to decompose spatial spots into cell type proportions. It
        also provides multi-sample integration using Fused
        Gromov-Wasserstein (FGW) optimal transport, spatial clustering
        with neighborhood awareness, and visualization functions.
        STRIDER is designed to work seamlessly with Seurat objects (v4
        and v5) and supports various input formats including 10X
        Genomics HDF5 files.
License: MIT + file LICENSE
URL: https://github.com/Zaoqu-Liu/STRIDER
BugReports: https://github.com/Zaoqu-Liu/STRIDER/issues
Encoding: UTF-8
RoxygenNote: 7.3.3
Depends: R (>= 4.0.0)
Imports: Matrix, methods, stats, rlang (>= 1.0.0), data.table, ggplot2
        (>= 3.4.0), viridis, Rcpp (>= 1.0.0)
Suggests: text2vec (>= 0.6.0), FNN, scatterpie, scales, hdf5r, rhdf5,
        SeuratObject, patchwork, future, future.apply, igraph, cluster,
        testthat (>= 3.0.0)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
SystemRequirements: GNU make
Config/testthat/edition: 3
Roxygen: list(markdown = TRUE)
Config/pak/sysreqs: make
Repository: https://zaoqu-liu.r-universe.dev
Date/Publication: 2026-01-24 19:14:08 UTC
RemoteUrl: https://github.com/Zaoqu-Liu/STRIDER
RemoteRef: main
RemoteSha: 8fbfecb48f36d48d6536524fcc066393fb2052f4
Packaged: 2026-07-23 06:02:37 UTC; root