CV

Presentations in conferences

=> https://github.com/statnmap/prez/

Here I store my presentations in conferences as PDF.

• 2021-05 - How to build a package with the Rmd first method? - Hebrew R User Group Lille

  • Package build during presentation : {squirrels.fusen}
  • List of questions and answers on HackMd :
  • Related package presented : {fusen}

• 2021-04 - How to build a package with the Rmd first method? - Meetup R Lille

  • Package build during presentation : {squirrels.fusen}
  • List of questions and answers on HackMd : https://hackmd.io/2WEGjlnsTNa1-6k_ztAMZA?view
  • Watch video on Youtube : https://www.youtube.com/watch?v=febuOcS70t4
  • Related package presented : {fusen}

• 2020-10 - Development workflow at ThinkR: PROPRE, DataOps and DevOps workflows - ecoinfoFAIR2020

• 2020-02 - Transforming scattered analyses into a documented, reproducible and shareable workflow - FOSDEM Brussels

  • Watch video at FOSDEM 2020: https://video.fosdem.org/2020/AW1.126/open_research_shareable_workflow.mp4
  • See related blog post (FR) : https://thinkr.fr/transformer-plusieurs-scripts-eparpilles-en-beau-package-r/

• 2019-07 - The “Rmd first” method: when projects start with documentation - useR Toulouse

  • See this blog post: https://rtask.thinkr.fr/rmd-first-when-development-starts-with-documentation
  • Watch video on Youtube: https://youtu.be/cB1BCxFbhtk

• 2019-02 - Everything but maps with spatial tools - SatRday Paris (EN)

  • Watch video on Youtube: https://youtu.be/Gwb1aeD_sVs
  • Get the (not totally reproducible) Rmd of the presentation

• 2018-07 - Les SIG et la cartographie avec R - Rencontres R (FR)

  • See this blog post (FR & EN) for this presentation: https://statnmap.com/2018-07-14-introduction-to-mapping-with-sf-and-co/

Open-source contributions

• My github account : https://github.com/statnmap
• See category open-source on this website

2019 Sébastien Rochette, & Marion Louveaux. (2019, January 25). VisualExpert: A Shiny web interface for expert image comparison (Version v0.0.1). Zenodo. http://doi.org/10.5281/zenodo.2549677

2018 Marion Louveaux, & Sébastien Rochette. (2018, October 19). mamut2r: a R package to import and visualize xml files from the MaMuT Fiji plugin (Version v0.0.2). Zenodo. http://doi.org/10.5281/zenodo.1467431

Marion Louveaux, & Sébastien Rochette. (2018, October 18). mgx2r: a R package for importing meshes and cell graph files from MorphoGraphX software (Version v0.0.2). Zenodo. http://doi.org/10.5281/zenodo.1466047

2017
Rochette S. (2017, September 18). SDMSelect: A R-package for cross-validation model selection and species distribution mapping. Zenodo. http://doi.org/10.5281/zenodo.894344
* See associated blog posts

Scientific papers

2017 Petit T., Bajjouk T., Mouquet P., Rochette S., Vozel B., Delacourt C. (2017). Hyperspectral remote sensing of coral reefs by semi-analytical model inversion – Comparison of different inversion setups. Remote Sensing of Environment, ISSN: 0034-4257, Vol: 190, Page: 348-365. https://doi.org/10.1016/j.rse.2017.01.004

Peck M. A., Arvanitidis C., Butenschön M., Canu D. M., Chatzinikolaou E., Cucco A., Domenici P., Fernandes J. A., Gasche L., Huebert K. B., Hufnagl M., Jones M. C., Kempf A., Keyl F., Maar M., Mahévas S., Marchal P., Nicolas D., Pinnegar J. K., Rivot E., Rochette S., Sell A. F., Sinerchia M., Solidoro C., Somerfield P. J., Teal L. R., Travers-Trolet M., Van De Wolfshaar K. E. (2017). Projecting changes in the distribution and productivity of living marine resources: A critical review of the suite of modeling approaches used in the large European project VECTORS. Estuarine, Coastal and Shelf Science. Volume 201, 5 February 2018, Pages 40-55. http://doi.org/10.1016/j.ecss.2016.05.019

2016
Louveaux, M., Rochette, S., Beauzamy, L., Boudaoud, A. and Hamant, O. (2016), The impact of mechanical compression on cortical microtubules in Arabidopsis: a quantitative pipeline. Plant J. Volume88, Issue2, Pages 328-342. doi:10.1111/tpj.13290
* A blog article on the R-Shiny app associated
* The R-Shiny app to test here
* The code of the R-shiny app

Peck Myron A., Arvanitidis Christos, Butenschön Momme, Canu Donata Melaku, Chatzinikolaou Eva, Cucco Andrea, Domenici Paolo, Fernandes Jose A., Gasche Loic, Huebert Klaus B., Hufnagl Marc, Jones Miranda C., Kempf Alexander, Keyl Friedemann, Maar Marie, Mahévas Stephanie, Marchal Paul, Nicolas Delphine, Pinnegar John K., Rivot Etienne, Rochette Sebastien, Sell Anne F., Sinerchia Matteo, Solidoro Cosimo, Somerfield Paul J., Teal Lorna R., Travers-Trolet Morgane, Van De Wolfshaar Karen E. (2016) Projecting changes in the distribution and productivity of living marine resources: A critical review of the suite of modeling approaches used in the large European project VECTORS. Estuarine, Coastal and Shelf Science, In press. http://doi.org/10.1016/j.ecss.2016.05.019

2015
Bajjouk Touria, Rochette Sebastien, Laurans Martial, Ehrhold Axel, Hamdi Anouar, Le Niliot Philippe (2015). Multi-approach mapping to help spatial planning and management of the kelp species L. digitata and L. hyperborea: Case study of the Molène Archipelago, Brittany. Journal Of Sea Research, 100, 2-21. http://dx.doi.org/10.1016/j.seares.2015.04.004

2014
Trancart Thomas, Rochette Sebastien, Acou Anthony, Lasne Émilien, Feunteun Éric (2014). Modeling marine shad distribution using data from French bycatch fishery surveys. Marine Ecology Progress Series, 511, 181-192. http://dx.doi.org/10.3354/meps10907

Lassalle Geraldine, Bourdaud Pierre, Saint-Beat Blanche, Rochette Sebastien, Niquil Nathalie (2014). A toolbox to evaluate data reliability for whole-ecosystem models: Application on the Bay of Biscay continental shelf food-web model. Ecological Modelling, 285, 13-21. Publisher’s official version : http://dx.doi.org/10.1016/j.ecolmodel.2014.04.002 , Open Access version : http://archimer.ifremer.fr/doc/00188/29969/
* Model construction explanation

Nicolas Delphine, Rochette Sebastien, Llope Marcos, Licandro Priscilla (2014). Spatio-Temporal Variability of the North Sea Cod Recruitment in Relation to Temperature and Zooplankton. Plos One, 9(2), e88447. Publisher’s official version : http://dx.doi.org/10.1371/journal.pone.0088447 , Open Access version : http://archimer.ifremer.fr/doc/00181/29250/

2013
Rochette Sebastien, Le Pape Olivier, Vigneau Joel, Rivot Etienne (2013). A hierarchical Bayesian model for embedding larval drift and habitat models in integrated life cycles for exploited fish. Ecological Applications, 23(7), 1659-1676. Publisher’s official version : http://dx.doi.org/10.1890/12-0336.1 , Open Access version : http://archimer.ifremer.fr/doc/00161/27243/
* OpenBUGS code of the model

2012
Rochette Sebastien, Huret Martin, Rivot Etienne, Le Pape Olivier (2012). Coupling hydrodynamic and individual-based models to simulate long-term larval supply to coastal nursery areas. Fisheries Oceanography, 21(4), 229-242. Publisher’s official version : http://dx.doi.org/10.1111/j.1365-2419.2012.00621.x , Open Access version : http://archimer.ifremer.fr/doc/00085/19598/

Blanchet Aline, Dubois Stanislas, Hily Christian, Rochette Sebastien, Le Goaster Edouard, Guillou Monique (2012). Multi-decadal changes in two co-occurring ophiuroid populations. Marine Ecology-progress Series, 460, 79-90. Publisher’s official version : http://dx.doi.org/10.3354/meps09784 , Open Access version : http://archimer.ifremer.fr/doc/00090/20136/

2011
Cordier Mateo, Perez Agundez Jose A., O’Connor Martin, Rochette Sebastien, Hecq Walter (2011). Quantification of interdependencies between economic systems and ecosystem services: An input-output model applied to the Seine estuary. Ecological Economics, 70(9), 1660-1671. Publisher’s official version : http://dx.doi.org/10.1016/j.ecolecon.2011.04.009 , Open Access version : http://archimer.ifremer.fr/doc/00041/15222/

Gascuel D., Bez Nicolas, Forest Andre, Guillotreau P., Laloe F., Lobry Jeremy, Mahevas Stephanie, Mesnil Benoit, Rivot Etienne, Rochette Sébastien, Trenkel Verena (2011). A future for marine fisheries in Europe (Manifesto of the Association Francaise d’Halieumetrie). Fisheries Research, 109(1), 1-6. Publisher’s official version : http://dx.doi.org/10.1016/j.fishres.2011.02.002 , Open Access version : http://archimer.ifremer.fr/doc/00035/14598/

Kostecki Caroline, Rochette S., Girardin R., Blanchard Michel, Desroy Nicolas, Le Pape Olivier (2011). Reduction of flatfish habitat as a consequence of the proliferation of an invasive mollusc. Estuarine Coastal And Shelf Science, 92(1), 154-160. Publisher’s official version : http://dx.doi.org/10.1016/j.ecss.2010.12.026 , Open Access version : http://archimer.ifremer.fr/doc/00035/14641/

2010
Rochette S., Rivot Etienne, Morin Jocelyne, Mackinson S., Riou Philippe, Le Pape Olivier (2010). Effect of nursery habitat degradation on flatfish population: Application to Solea solea in the Eastern Channel (Western Europe). Journal Of Sea Research, 64(1-2), 34-44. Publisher’s official version : http://dx.doi.org/10.1016/j.seares.2009.08.003 , Open Access version : http://archimer.ifremer.fr/doc/00008/11921/

2009
Rochette Sebastien, Lobry Jeremy, Lepage Mario, Boet Philippe (2009). Dealing with uncertainty in qualitative models with a semi-quantitative approach based on simulations. Application to the Gironde estuarine food web (France). Ecological Modelling, 220, 122-132. http://dx.doi.org/10.1016/j.ecolmodel.2008.09.017
* Model construction explanation
* Presentation of the paper is here

Phd thesis

S. Rochette (2011). Effect of anthropogenic perturbations on juvenile marine fish survival in nurseries and consequences on population renewal. Application to common sole (Solea solea) in the Eastern Channel, phD thesis, AGROCAMPUS OUEST, 155 p., 201

Dataset

2016
Caillaud M., Petton S., Dumas F., Rochette S., Vasquez M. (2016). Rejeu hydrodynamique à 500 m de résolution avec le modèle MARS3D-AGRIF - Zone Manche-Gascogne. IFREMER. http://doi.org/10.12770/3edee80f-5a3e-42f4-9427-9684073c87f5