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1 | | -- **ENCORE. Enhancing Computational Reproducibility** |
| 1 | +**ENCORE. Enhancing Computational Reproducibility** |
2 | 2 |
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3 | | - [THIS FILE WILL BE UPDATED] |
| 3 | +*VERSION V4.0* |
4 | 4 |
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5 | | - |
| 5 | +[THIS FILE WILL BE UPDATED] |
6 | 6 |
|
7 | | - ##### CITATION |
8 | 7 |
|
9 | | - ENCORE is an initiative of the Bioinformatics Laboratory ([www.bioinformaticslaboratory.eu](http://www.bioinformaticslaboratory.eu)) and can be cited as |
10 | 8 |
|
11 | | - * van Kampen, A., Mahamune, U., Jongejan, A., van Schaik, B., Balashova, D., Lashgari, D., Pras-Raves, M., Wever, E., Valiente, R.G., Dane, A., and Moerland, P (2023). ENCORE. A Practical Implementation to Improve Reproducibility and Transparency of Computational Research. [MetaArXiv](https://osf.io/preprints/metaarxiv/m9yqz/). September 27. [doi:10.31222/osf.io/m9yqz](). |
| 9 | +##### CITATION |
12 | 10 |
|
13 | | - * Antoine H.C. van Kampen, Utkarsh Mahamune, Aldo Jongejan, Barbera D.C. van Schaik1, Daria Balashova, Danial Lashgari, Rodrigo García-Valiente, Mia Pras-Raves, Adrie D. Dane, Perry D. Moerland (2023) ENCORE. A practical implementation to improve reproducibility and transparency of computational research. in prep. |
| 11 | +ENCORE is an initiative of the Bioinformatics Laboratory ([www.bioinformaticslaboratory.eu](http://www.bioinformaticslaboratory.eu)) and can be cited as |
14 | 12 |
|
15 | | - |
| 13 | +* van Kampen, A., Mahamune, U., Jongejan, A., van Schaik, B., Balashova, D., Lashgari, D., Pras-Raves, M., Wever, E., Valiente, R.G., Dane, A., and Moerland, P (2023). ENCORE. A Practical Implementation to Improve Reproducibility and Transparency of Computational Research. [MetaArXiv](https://osf.io/preprints/metaarxiv/m9yqz/). September 27. [doi:10.31222/osf.io/m9yqz](). |
16 | 14 |
|
17 | | - The **FSS Navigator** is part of ENCORE and can be referred to as: |
| 15 | +* Antoine H.C. van Kampen, Utkarsh Mahamune, Aldo Jongejan, Barbera D.C. van Schaik1, Daria Balashova, Danial Lashgari, Rodrigo García-Valiente, Mia Pras-Raves, Adrie D. Dane, Perry D. Moerland (2023) ENCORE. A practical implementation to improve reproducibility and transparency of computational research. in prep. |
18 | 16 |
|
19 | | - * Van Kampen AHC, Mahamune U, Jongejan, A (2023) The standardized file system structure (FSS) navigator. Zenodo. DOI: https://doi.org/10.5281/zenodo.7985655 |
| 17 | + |
20 | 18 |
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21 | | - |
| 19 | +The **FSS Navigator** is part of ENCORE and can be referred to as: |
22 | 20 |
|
23 | | - **GitHub** |
| 21 | +* Van Kampen AHC, Mahamune U, Jongejan, A (2023) The standardized file system structure (FSS) navigator. Zenodo. DOI: https://doi.org/10.5281/zenodo.7985655 |
24 | 22 |
|
25 | | - GitHub repository containing the ENCORE sFSS template: |
26 | 23 |
|
27 | | - * https://github.com/EDS-Bioinformatics-Laboratory/ENCORE |
28 | 24 |
|
29 | | - |
| 25 | +**GitHub** |
30 | 26 |
|
31 | | - |
| 27 | +GitHub repository containing the ENCORE sFSS template: |
| 28 | + |
| 29 | +* https://github.com/EDS-Bioinformatics-Laboratory/ENCORE |
| 30 | + |
| 31 | + |
| 32 | + |
| 33 | + |
| 34 | + |
| 35 | +##### ACKNOWLEDGEMENTS |
| 36 | + |
| 37 | +ENCORE is an initiative of the Bioinformatics Laboratory ([www.bioinformaticslaboratory.eu](http://www.bioinformaticslaboratory.eu)) with contributions from all group members: |
| 38 | + |
| 39 | +- Prof. dr. Antoine van Kampen |
| 40 | +- Dr. Perry Moerland |
| 41 | +- Dr. Aldo Jongejan |
| 42 | +- Dr. Adrie Dane |
| 43 | +- Dr. Mia Pras-Raves (current address UMC Utrecht) |
| 44 | +- Barbera van Schaik |
| 45 | +- Eric Wever |
| 46 | +- Dasha Balashova |
| 47 | +- Rodrigo Garcia Valiente |
| 48 | +- Danial Lashgari |
| 49 | +- Utkarsh Mahamune |
32 | 50 |
|
33 | | - ##### ACKNOWLEDGEMENTS |
34 | 51 |
|
35 | | - ENCORE is an initiative of the Bioinformatics Laboratory ([www.bioinformaticslaboratory.eu](http://www.bioinformaticslaboratory.eu)) with contributions from many group members: |
36 | | - |
37 | | - - Prof. dr. Antoine van Kampen |
38 | | - - Dr. Perry Moerland |
39 | | - - Dr. Aldo Jongejan |
40 | | - - Dr. Adrie Dane |
41 | | - - Dr. Mia Pras-Raves (current address UMC Utrecht) |
42 | | - - Barbera van Schaik |
43 | | - - Eric Wever |
44 | | - - Dasha Balashova |
45 | | - - Rodrigo Garcia Valiente |
46 | | - - Danial Lashgari |
47 | | - - Utkarsh Mahamune |
48 | 52 |
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49 | | - |
50 | | - |
51 | | - |
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