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More publications/posters for the README #112

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2 changes: 1 addition & 1 deletion CITATION.cff
Original file line number Diff line number Diff line change
Expand Up @@ -18,7 +18,7 @@ cff-version: 1.2.0
identifiers:
- description: WfExS-backend release in Zenodo
type: doi
value: "10.5281/zenodo.6567592"
value: "10.5281/zenodo.6567591"
keywords:
- workflows
- ro-crate
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48 changes: 45 additions & 3 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -29,11 +29,48 @@ and [cwltool](https://github.com/common-workflow-language/cwltool)).

Additional present and future documentation is hosted at [development-docs](development-docs/index.md) subfolder, until it is migrated to a proper documentation service.

## Cite as

José María Fernández, Laura Rodríguez-Navas, Adrián Muñoz-Cívico, Paula Iborra, Daniel Lea (2024):
**WfExS-backend**.
_Zenodo_
<https://doi.org/10.5281/zenodo.6567591>

Visit the [Zenodo record](https://doi.org/10.5281/zenodo.6567591) for the latest versioned DOI and author list.

### Presentations and outreach

Fernández JM, Rodríguez-Navas L and Capella-Gutiérrez S. Secured and annotated execution of workflows with WfExS-backend [version 1; not peer reviewed]. F1000Research 2022, 11:1318 (poster) (https://doi.org/10.7490/f1000research.1119198.1)
Paula Iborra, José M. Fernández, Salvador Capella-Gutierrez (2024):
[**Onboarding Snakemake: Progress towards WfExS-backend integration**](https://doi.org/10.7490/f1000research.1119725.1).
_F1000Research_ **13**(ELIXIR):551 (poster)
<https://doi.org/10.7490/f1000research.1119725.1>

Eugenio Gonzalo1, Laia Codó, Jose María Fernandez, Stian Soiland-Reyes, Salvador Capella-Gutierrez, Emily Jefferson, Carole Goble, Tim Beck, Phil Quinlan, Tom Giles (2024):
[**Five safes workflow RO-Crate and WfExS**. Closing the gap of federated analysis and Trusted Research Enviroments (TREs) in the health data context](https://doi.org/10.7490/f1000research.1119724.1).
_F1000Research_ **13**(ELIXIR):550 (poster)
<https://doi.org/10.7490/f1000research.1119724.1>

José M. Fernández, Paula Iborra, Sébastien Moretti, Arun Isaac, Paul De Geest, Stian Soiland-Reyes (2024):
[**BioHackEU23: FAIR Workflow Execution with WfExS and Workflow Run Crate**](https://doi.org/10.37044/osf.io/7f94w).
_BioHackrXiv_
<https://doi.org/10.37044/osf.io/7f94w>

Laura Rodríguez-Navas (2021):
Simone Leo, Michael R. Crusoe, Laura Rodríguez-Navas, Raül Sirvent, Alexander Kanitz, Paul De Geest, Rudolf Wittner, Luca Pireddu, Daniel Garijo, José M. Fernández, Iacopo Colonnelli, Matej Gallo, Tazro Ohta, Hirotaka Suetake, Salvador Capella-Gutierrez, Renske de Wit, Bruno de Paula Kinoshita, Stian Soiland-Reyes (2024):
[**Recording provenance of workflow runs with RO-Crate**](https://doi.org/10.48550/arXiv.2312.07852).
_arXiv_:2312.07852
<https://doi.org/10.48550/arXiv.2312.07852>

José M. Fernández1, Laura Rodriguez-Navas, Salvador Capella-Gutiérrez (2023):
[**WfExS-backend in the WRROC world**?](https://doi.org/10.7490/f1000research.1119457.1)
_F1000Research_ **12**(ELIXIR):616 (poster)
<https://doi.org/10.7490/f1000research.1119457.1>

Fernández JM, Rodríguez-Navas L and Capella-Gutiérrez S.
[**Secured and annotated execution of workflows with WfExS-backend**](https://doi.org/10.7490/f1000research.1119198.1) [version 1; not peer reviewed].
_F1000Research_ 2022, 11:1318 (poster)
<https://doi.org/10.7490/f1000research.1119198.1>

Laura Rodríguez-Navas (2021):
[**WfExS: a software component to enable the use of RO-Crate in the EOSC-Life collaboratory**](https://osf.io/tb5ku/).
_FAIR Digital Object Forum_, [CWFR & FDO SEM meeting](https://osf.io/v8xjz/), 2021-07-02
[[video recording](https://osf.io/wna42/)], [[slides](https://osf.io/tb5ku/)]
Expand All @@ -42,7 +79,7 @@ Laura Rodríguez-Navas (2021):
[**WfExS: a software component to enable the use of RO-Crate in the EOSC-Life tools collaboratory**](https://repository.eoscsecretariat.eu/index.php/s/ERebmpJcyjFRqcx/download?path=%2F17%20June%2F1400%20-%20Technical%20challenges%20on%20EOSC%2FBreakout%203%20-%20Interoperability%20challenges%20for%20thematic%20communities&files=05%20-%20Laura%20Rodr%C3%ADguez-Navas%20-%20WfExS.pdf&downloadStartSecret=zwwx23xrow).
_[EOSC Symposium 2021](https://www.eoscsecretariat.eu/eosc-symposium-2021-programme)_, 2021-06-17
[[video recording](https://youtu.be/x5lLEym-gug?list=PLbISfqJh3Tstmx6CgrBmYI7lyyVXiY5VE&t=3238)]
[[slides](https://drive.google.com/file/d/1LJkmI_gyl9VnuQ2_ZHBGeFkt_QTWFieg/view)
[[slides](https://drive.google.com/file/d/1LJkmI_gyl9VnuQ2_ZHBGeFkt_QTWFieg/view)]

Salvador Capella-Gutierrez (2021):
[**Demonstrator 7: Accessing human sensitive data from analytical workflows available to everyone in EOSC-Life**](https://www.eosc-life.eu/d7/)
Expand All @@ -55,6 +92,11 @@ Bietrix, Florence; Carazo, José Maria; Capella-Gutierrez, Salvador; Coppens, Fr
EOSC-Life deliverable D8.1, _Zenodo_
<https://doi.org/10.5281/zenodo.4705078>

## Example RO-Crate outputs

* <https://doi.org/10.5281/zenodo.12588049> -- execution of [WOMBAT-Pipelines](https://github.com/wombat-p/WOMBAT-Pipelines) Nextflow workflow
* <https://doi.org/10.5281/zenodo.12622362> -- execution of [Wetlab2Variations](https://github.com/inab/Wetlab2Variations/) CWL workflow


## WfExS-backend Usage

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