# PGScatalog/pgsc_calc: Citations

> Lambert, Wingfield _et al._ (2024) Enhancing the Polygenic Score Catalog with tools for score calculation and ancestry normalization. Nature Genetics. doi:[10.1038/s41588-024-01937-x](https://doi.org/10.1038/s41588-024-01937-x).
  
## [nf-core](https://pubmed.ncbi.nlm.nih.gov/32055031/)

> Ewels PA, Peltzer A, Fillinger S, Patel H, Alneberg J, Wilm A, Garcia MU, Di Tommaso P, Nahnsen S. The nf-core framework for community-curated bioinformatics pipelines. Nat Biotechnol. 2020 Mar;38(3):276-278. doi: 10.1038/s41587-020-0439-x. PubMed PMID: 32055031.

## [Nextflow](https://pubmed.ncbi.nlm.nih.gov/28398311/)

> Di Tommaso P, Chatzou M, Floden EW, Barja PP, Palumbo E, Notredame C. Nextflow enables reproducible computational workflows. Nat Biotechnol. 2017 Apr 11;35(4):316-319. doi: 10.1038/nbt.3820. PubMed PMID: 28398311.

## Pipeline tools

* [PGS Catalog API](https://pubmed.ncbi.nlm.nih.gov/33692568/)
    > Lambert, Wingfield _et al._ (2024) Enhancing the Polygenic Score Catalog with tools for score calculation and ancestry normalization. Nature Genetics. doi:[10.1038/s41588-024-01937-x](https://doi.org/10.1038/s41588-024-01937-x).

* [pygscatalog](https://github.com/PGScatalog/pygscatalog)

    > Lambert, Wingfield _et al._ (2024) Enhancing the Polygenic Score Catalog with tools for score calculation and ancestry normalization. Nature Genetics. doi:[10.1038/s41588-024-01937-x](https://doi.org/10.1038/s41588-024-01937-x).
    
* [PLINK 2](https://pubmed.ncbi.nlm.nih.gov/25722852/)
    > Chang CC, Chow CC, Tellier LC, Vattikuti S, Purcell SM, Lee JJ. Second-generation PLINK: rising to the challenge of larger and richer datasets. Gigascience. 2015 Dec 1;4(1):s13742-015. doi: 10.1186/s13742-015-0047-8. PubMed PMID: 25722852. PubMed Central PMCID: PMC4342193.

* [FRAPOSA](https://pubmed.ncbi.nlm.nih.gov/32196066/)
    > Zhang, D., et al. (2020) Fast and robust ancestry prediction using principal component analysis. Bioinformatics 36(11):3439–3446. https://doi.org/10.1093/bioinformatics/btaa152

## Software packaging/containerisation tools

* [Anaconda](https://anaconda.com)
    > Anaconda Software Distribution. Computer software. Vers. 2-2.4.0. Anaconda, Nov. 2016. Web.

* [Bioconda](https://pubmed.ncbi.nlm.nih.gov/29967506/)
    > Grüning B, Dale R, Sjödin A, Chapman BA, Rowe J, Tomkins-Tinch CH, Valieris R, Köster J; Bioconda Team. Bioconda: sustainable and comprehensive software distribution for the life sciences. Nat Methods. 2018 Jul;15(7):475-476. doi: 10.1038/s41592-018-0046-7. PubMed PMID: 29967506.

* [Docker](https://dl.acm.org/doi/10.5555/2600239.2600241)

* [Singularity](https://pubmed.ncbi.nlm.nih.gov/28494014/)
    > Kurtzer GM, Sochat V, Bauer MW. Singularity: Scientific containers for mobility of compute. PLoS One. 2017 May 11;12(5):e0177459. doi: 10.1371/journal.pone.0177459. eCollection 2017. PubMed PMID: 28494014; PubMed Central PMCID: PMC5426675.
