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# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "HumanRetinaLRSData" in publications use:'
type: software
license: MIT
title: 'HumanRetinaLRSData: Long-read RNA-seq gene count data from human retinal organoids'
version: 1.1.0
doi: 10.1101/2025.11.26.689062
identifiers:
- type: doi
  value: 10.32614/CRAN.package.HumanRetinaLRSData
abstract: Dataset package containing gene and isoform count matrices, and sample metadata
  for long-read direct cDNA sequencing of human retinal organoids, 2D retinal ganglion
  cell (RGC) cultures, and flowthrough fractions from H9 and EP1 iPSC cell lines.
  Data were generated using Oxford Nanopore Technology (ONT) direct cDNA sequencing
  and mapped to the GRCh38 reference genome (GENCODE v46 annotation). The package
  provides accessor functions returning SummarizedExperiment objects for gene-level
  counts, isoform-level counts, and a matrix of allele-specific expression (ASE) gene
  counts. Data files are stored in flat CSV format in an Open Science Framework (OSF)
  repository and cached locally via BiocFileCache.
authors:
- family-names: Parthiban
  given-names: Sowmya
  email: sparthi1@jhu.edu
preferred-citation:
  type: article
  title: Dynamic changes in mRNA isoform usage during human retinal development
  authors:
  - family-names: Keuthan
    given-names: Casey J.
  - family-names: Parthiban
    given-names: Sowmya
    email: sparthi1@jhu.edu
  - family-names: Chang
    given-names: Yen-Yu
  - family-names: Shan
    given-names: Xiaoqian
  - family-names: Chang
    given-names: Xiaoli
  - family-names: Yan
    given-names: Ethan
  - family-names: Cavalier
    given-names: Sheridan
  - family-names: Timp
    given-names: Winston
  - family-names: Hicks
    given-names: Stephanie C.
  - family-names: Zack
    given-names: Donald J.
  year: '2025'
  journal: bioRxiv
  doi: 10.1101/2025.11.26.689062
  url: https://doi.org/10.1101/2025.11.26.689062
repository: https://bioc.r-universe.dev
repository-code: https://github.com/sparthib/HumanRetinaLrsData
commit: 85415f64fb013a1ce19ad4c2c8d9879886e8af1c
url: https://github.com/sparthib/HumanRetinaLrsData
date-released: '2026-04-28'
contact:
- family-names: Parthiban
  given-names: Sowmya
  email: sparthi1@jhu.edu