# ------------------------------------------------
# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# ------------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "spatialDESeq" in publications use:'
type: software
license: MIT
title: 'spatialDESeq: Spatial Differential Expression via Spatial Autoregressive GLMs'
version: 0.99.2
doi: 10.32614/CRAN.package.spatialDESeq
abstract: A robust, parallelized statistical framework optimized for identifying spatially
  differential expression in high-throughput spatial transcriptomics datasets. The
  package extends standard negative binomial generalized linear models (GLMs) by incorporating
  continuous physical tissue spot coordinates as distance-weighted local smoothing
  covariates. This configuration models spatial context seamlessly without relying
  on pre-annotated categorical tissue clusters. The underlying distance matrix evaluations
  and coordinate smoothing routines are accelerated natively via an optimized C++
  Armadillo matrix engine to guarantee computational efficiency. Built to integrate
  natively into the Bioconductor ecosystem, the package operates directly on SpatialExperiment
  containers, incorporates robust library-size normalization scaling factor offsets,
  calculates adjusted p-values for multi-gene profiles, and supplies an interactive
  Shiny-based point-and-click visualization dashboard tool for downstream exploratory
  data analysis.
authors:
- family-names: Paladan
  given-names: Sahal
  email: sahalpaladan@gmail.com
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com
commit: 4ad1683a4f1a2d30f88bc6adf7ca93d87adb09b1
url: https://github.com
date-released: '2026-08-24'
contact:
- family-names: Paladan
  given-names: Sahal
  email: sahalpaladan@gmail.com