generated: '2026-08-06'
method: searched
source: https://github.com/Alamar-Biosciences/NULISAseqR
notes: >-
  Alamar Biosciences publishes no public web API, so there is no API client SDK. What it does
  publish first-party is an open-source data-analysis library for the output of its own
  instruments: the NULISAseqR R package. It is NOT distributed through CRAN (probed
  https://cran.r-project.org/package=NULISAseqR -> 404) or r-universe (404); the only
  supported install path is source install from GitHub. No first-party npm, PyPI, Maven,
  NuGet, Go, RubyGems, Packagist or crates.io package was found. Because none of these are
  clients of a callable API, NO `SDKs` pointer is emitted for this provider.
registries_probed:
- registry: cran
  url: https://cran.r-project.org/package=NULISAseqR
  status: 404
- registry: r-universe
  url: https://alamar-biosciences.r-universe.dev/api/packages
  status: 404
- registry: pypi
  url: https://pypi.org/pypi/nulisaseq/json
  status: 404
- registry: npm
  url: https://registry.npmjs.org/nulisaseq
  status: 404
packages:
- language: r
  registry: github
  name: NULISAseqR
  version: 1.5.1
  license: GPL-3
  url: https://github.com/Alamar-Biosciences/NULISAseqR
  docs: https://nulisaseqr.alamarbio.com/
  issues: https://github.com/Alamar-Biosciences/NULISAseqR/issues
  install: devtools::install_github('Alamar-Biosciences/NULISAseqR')
  official: true
  kind: data-analysis-library
  description: >-
    Comprehensive analysis tools for NULISAseq proteomic data: XML data import, intra- and
    inter-plate normalization against internal controls, quality control metrics, limit of
    detection and detectability, differential abundance / outcome modeling, visualization
    (heatmaps, PCA, volcano) and automated HTML QC report generation.
  maintainer: Alamar Biosciences Bioinformatics Team <bioinfo@alamarbio.com>
  requires: R (>= 4.1.0); README states R 4.4+
  install_prerequisites:
  - BiocManager::install("ComplexHeatmap")
  - install.packages('ggalt', repos = "http://packagemanager.posit.co/cran/2025-08-02")
  - devtools::install_github('Alamar-Biosciences/PCAtools')
  x-evidence:
    fetched: '2026-08-06'
    url: https://raw.githubusercontent.com/Alamar-Biosciences/NULISAseqR/main/DESCRIPTION
    http_status: 200
forks_not_first_party:
  note: >-
    The Alamar-Biosciences GitHub org carries 13 forks of third-party projects (ComplexHeatmap,
    PCAtools, iheatmapr, qs, cicerone, shiny.telemetry, rdmlpython, claude-scientific-writer,
    and four MCP-server repos: medical-mcps, GTEx-MCP-Server, ProteinAtlas-MCP-Server,
    GeneOntology-MCP-Server). Every one has `fork: true` on the GitHub API. These are NOT
    Alamar-authored packages or Alamar-operated MCP servers and are deliberately excluded from
    `packages[]` and from any MCPServer artifact.
  verified: '2026-08-06'
  url: https://api.github.com/orgs/Alamar-Biosciences/repos