diff --git a/._bios2.github.io.Rproj b/._bios2.github.io.Rproj index 544a465..8133f84 100644 Binary files a/._bios2.github.io.Rproj and b/._bios2.github.io.Rproj differ diff --git a/.quarto/listing/listing-cache.json b/.quarto/listing/listing-cache.json index 0362d48..74d3e85 100644 --- a/.quarto/listing/listing-cache.json +++ b/.quarto/listing/listing-cache.json @@ -56,6 +56,12 @@ ], "summer-schools/v2024/tutorials/atlas.qmd": [ "B3049D40" + ], + "summer-schools/v2024/other_resources.Rmd": [ + "B3049D40" + ], + "summer-schools/v2024/slides/slides.Rmd": [ + "B3049D40" ] } } \ No newline at end of file diff --git a/.quarto/xref/3766ef87 b/.quarto/xref/3766ef87 index 4415144..3c35f2b 100644 --- a/.quarto/xref/3766ef87 +++ b/.quarto/xref/3766ef87 @@ -1 +1 @@ -{"headings":["introduction-to-edi-concepts-in-a-scientific-context","introduction-aux-concepts-edi-en-contexte-scientifique"],"entries":[]} \ No newline at end of file +{"entries":[],"headings":["introduction-to-edi-concepts-in-a-scientific-context","introduction-aux-concepts-edi-en-contexte-scientifique"]} \ No newline at end of file diff --git a/.quarto/xref/442bc2ed b/.quarto/xref/442bc2ed index c4b6de6..fafdf78 100644 --- a/.quarto/xref/442bc2ed +++ b/.quarto/xref/442bc2ed @@ -1 +1 @@ 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\ No newline at end of file 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\ No newline at end of file diff --git a/.quarto/xref/INDEX b/.quarto/xref/INDEX index 3b7331d..ed1c9bf 100644 --- a/.quarto/xref/INDEX +++ b/.quarto/xref/INDEX @@ -85,5 +85,11 @@ }, "summer-schools/v2024/tutorials/atlas.qmd": { "atlas.html": "9c37344b" + }, + "summer-schools/v2024/other_resources.Rmd": { + "other_resources.html": "d15bab86" + }, + "summer-schools/v2024/slides/slides.Rmd": { + "slides.html": "a2af2acc" } } \ No newline at end of file diff --git a/.quarto/xref/a07a8c4b b/.quarto/xref/a07a8c4b index 9d3d9c7..1acf430 100644 --- a/.quarto/xref/a07a8c4b +++ b/.quarto/xref/a07a8c4b @@ -1 +1 @@ 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+{"headings":["why-do-you-want-to-use-shiny","hello-shiny","how-a-shiny-app-works","building-blocks","ids","organisation","plots","user-interface","server","the-shiny-app","customising-the-theme","using-built-in-themes","using-a-custom-theme","customizing-a-theme","constructing-a-shiny-app-using-shinydashboards","taking-advantage-of-good-defaults","using-shinydashboard","populating-the-layout","challenge","see-the-completed-app","constructing-a-shiny-app-using-golem","golem-modules","selecting-the-volcanoes","barplot-of-continents"],"entries":[]} \ No newline at end of file diff --git a/.quarto/xref/e7d2c1ac b/.quarto/xref/e7d2c1ac index f301f72..bff6adc 100644 --- a/.quarto/xref/e7d2c1ac +++ b/.quarto/xref/e7d2c1ac @@ -1 +1 @@ -{"headings":["day-1","day-2","session-1-the-basics-of-science-communication","objectives","session-2-social-media-as-a-science-communication-tool","objectives-1"],"entries":[]} \ No newline at end of file +{"entries":[],"headings":["day-1","day-2","session-1-the-basics-of-science-communication","objectives","session-2-social-media-as-a-science-communication-tool","objectives-1"]} \ No newline at end of file diff --git a/.quarto/xref/e80605ec b/.quarto/xref/e80605ec index 6dfb720..4a71287 100644 --- a/.quarto/xref/e80605ec +++ b/.quarto/xref/e80605ec @@ -1 +1 @@ -{"entries":[],"headings":["training-material","interactive-examples","streamgraph","interactive-plot","example-figures","annotated-resource-library","books-articles","design-principles","choosing-a-visualization","colour","tools","r","base-r","ggplot2","python","julia","customization","inspiration-pretty-things"]} \ No newline at end of file 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a/.quarto/xref/efe04ec8 b/.quarto/xref/efe04ec8 index 90ba69a..7b674a9 100644 --- a/.quarto/xref/efe04ec8 +++ b/.quarto/xref/efe04ec8 @@ -1 +1 @@ -{"headings":["content","software","mathematica-installation","maxima-installation","maxima-testing","material","follow-along-pdf","other-resources","thanks"],"entries":[]} \ No newline at end of file +{"entries":[],"headings":["content","software","mathematica-installation","maxima-installation","maxima-testing","material","follow-along-pdf","other-resources","thanks"]} \ No newline at end of file diff --git a/_freeze/summer-schools/v2024/other_resources/execute-results/html.json b/_freeze/summer-schools/v2024/other_resources/execute-results/html.json new file mode 100644 index 0000000..69fd193 --- /dev/null +++ b/_freeze/summer-schools/v2024/other_resources/execute-results/html.json @@ -0,0 +1,15 @@ +{ + "hash": "fd663313cf94b0e58fa3a99abbddd91e", + "result": { + "engine": "knitr", + "markdown": "---\ntitle: \"Other resources\"\noutput: html_document\n---\n\n\n\n\n\n# Tutorials\n\n\n\n\n\n::: {.cell}\n\n:::\n\n\n\n\n\n\n# Notes document\n\n![](BIOS2-SS2024-BiodivModel-notes.pdf){width=85%}\n\n\n# Information document\n\n![](BIOS2-SS-BiodivModelling-2024.pdf){width=85%}", + "supporting": [], + "filters": [ + "rmarkdown/pagebreak.lua" + ], + "includes": {}, + "engineDependencies": {}, + "preserve": {}, + "postProcess": true + } +} \ No newline at end of file diff --git a/_freeze/summer-schools/v2024/slides/slides/execute-results/html.json b/_freeze/summer-schools/v2024/slides/slides/execute-results/html.json new file mode 100644 index 0000000..c3d75e5 --- /dev/null +++ b/_freeze/summer-schools/v2024/slides/slides/execute-results/html.json @@ -0,0 +1,15 @@ +{ + "hash": "8baa52e6456a8ead744f16872fbbbe0a", + "result": { + "engine": "knitr", + "markdown": "---\ntitle: \"Slides\"\noutput: html_document\n---\n\n\n\nBelow you will find the slides for the presentations made during the Summer School. Feel free to download them and use them for your own purposes.\n\n## Day 1\n\n### International negotiations\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n![](Gouvernance.pdf)\n:::\n:::\n\n\n\n### Global Biodiversity Framework\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n![](GlobalBiodFramework.pdf)\n:::\n:::\n\n\n\n## Day 2\n\n### LPI\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n![](mardi_1_LPI.pdf)\n:::\n:::\n\n\n\n### Quebec indicators\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n![](mardi_2_quebecindicators.pdf)\n:::\n:::\n\n\n\n\n\n## Day 3\n\n### [Accessing Biodiversity Data](https://vincent-beauregard-ielab.github.io/Ecole_dete_2024/#1)\n\n\n", + "supporting": [], + "filters": [ + "rmarkdown/pagebreak.lua" + ], + "includes": {}, + "engineDependencies": {}, + "preserve": {}, + "postProcess": true + } +} \ No newline at end of file diff --git a/docs/index.html b/docs/index.html index cacb409..2489f6f 100644 --- a/docs/index.html +++ b/docs/index.html @@ -251,7 +251,7 @@

BIOS² Education resources

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diff --git a/docs/listings.json b/docs/listings.json index b551990..57e1950 100644 --- a/docs/listings.json +++ b/docs/listings.json @@ -23,5 +23,9 @@ "/posts/2020-04-28-sensibilisation-aux-ralits-autochtones-et-recherche-collaborative/index.html", "/posts/2020-01-14-mathematical-modeling-in-ecology-and-evolution/index.html" ] + }, + { + "listing": "/summer-schools/v2024/slides/slides.html", + "items": [] } ] \ No newline at end of file diff --git a/docs/search.json b/docs/search.json index 1683c97..21e1f93 100644 --- a/docs/search.json +++ b/docs/search.json @@ -4,7 +4,7 @@ "href": "summer-schools/v2024/BiodiversityModelling2024.html", "title": "Biodiversity Modelling 2024", "section": "", - "text": "1 Foreword\nWelcome to the 2024 edition of our Summer School in Biodiversity Modelling!\nThe theme for this year is “Indicators to monitor biodiversity changes”, and we’ll discuss metrics to assess the health, diversity, and distribution of species, ecosystems, and genetic variability within an environment. These indicators provide valuable insights into the status and trends of biodiversity over time, helping to inform conservation efforts, policy-making, and sustainable development practices. By tracking these indicators, scientists and policymakers can monitor changes in biodiversity, identify areas of concern, prioritize conservation actions, and evaluate the effectiveness of conservation strategies. That’s why the program will navigate through a variety of topics, such as data pipelines, finances, communication and policy. We hope to immerse you in the complexity of this task which is the monitoring of biodiversity, and to reassure the need for interdisciplinary thinking.\n\nIf you want to go fast, go alone. If you want to go far, go together.\n\nHere you will find the shared materials to help you prepare, as well as tutorials that you can use during the course.\nEnjoy!\nThis course is presented by the Université de Sherbrooke, as part of the BIOS2 training program.\n\n\n2 Slides\nTo access the slides for the presentations made during the Summer School, please click here.\n\n\n3 Other resources\nFor additional resources, such as tutorials, information and notes documents, please click here.\n\n\n\n\n\n\n\n \n \n \n Order By\n Default\n \n Date - Oldest\n \n \n Date - Newest\n \n \n Author\n \n \n \n\n\n\n\n\n\n\n\n\n\nOther resources\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nSlides\n\n\n\n\n\n\n\n\n\n\n\nMay 13, 2024\n\n\n\n\n\n\nNo matching items" + "text": "1 Foreword\nWelcome to the 2024 edition of our Summer School in Biodiversity Modelling!\nThe theme for this year is “Indicators to monitor biodiversity changes”, and we’ll discuss metrics to assess the health, diversity, and distribution of species, ecosystems, and genetic variability within an environment. These indicators provide valuable insights into the status and trends of biodiversity over time, helping to inform conservation efforts, policy-making, and sustainable development practices. By tracking these indicators, scientists and policymakers can monitor changes in biodiversity, identify areas of concern, prioritize conservation actions, and evaluate the effectiveness of conservation strategies. That’s why the program will navigate through a variety of topics, such as data pipelines, finances, communication and policy. We hope to immerse you in the complexity of this task which is the monitoring of biodiversity, and to reassure the need for interdisciplinary thinking.\n\nIf you want to go fast, go alone. If you want to go far, go together.\n\nHere you will find the shared materials to help you prepare, as well as tutorials that you can use during the course.\nEnjoy!\nThis course is presented by the Université de Sherbrooke, as part of the BIOS2 training program.\n\n\n2 Slides\nTo access the slides for the presentations made during the Summer School, please click here.\n\n\n3 Other resources\nFor additional resources, such as tutorials, information and notes documents, please click here.\n\n\n\n\n\n\n\n \n \n \n Order By\n Default\n \n Author\n \n \n \n\n\n\n\n\n\n\n\n\n\nOther resources\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nSlides\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nNo matching items" }, { "objectID": "index.html", @@ -12,5 +12,33 @@ "title": "BIOS² Education resources", "section": "", "text": "Order By\n Default\n \n Date - Oldest\n \n \n Date - Newest\n \n \n Author\n \n \n \n\n\n\n\n\n\n\n\n\n\nIntroduction to Microbiome Analysis\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nThis workshop will give an overview of the theory and practice of using metabarcoding approaches to study the diversity of microbial communities. The workshop will give participants an understanding of 1) the current methods for microbiome diversity quantification using metabarcoding/amplicon sequencing approaches and 2) the normalization and diversity analysis approaches that can be used to quantify the diversity of microbial communities. \n\n\n\n\n\nMay 19, 2022\n\n\nSteven Kembel, Zihui Wang, Salix Dubois\n\n\n\n\n\n\n\n\n\n\n\n\nIntroduction to Generalized Additive Models (GAMs)\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nTo address the increase in both quantity and complexity of available data, ecologists require flexible, robust statistical models, as well as software to perform such analyses. This workshop will focus on how a single tool, the R mgcv package, can be used to fit Generalized Additive Models (GAMs) to data from a wide range of sources.\n\n\n\n\n\nNov 2, 2021\n\n\nEric Pedersen\n\n\n\n\n\n\n\n\n\n\n\n\nIntroduction to Shiny Apps\n\n\n\n\n\n\nTechnical\n\n\nFellow contributed\n\n\nEN\n\n\n\nIntroduction to interactive app development with R Shiny.\n\n\n\n\n\nJun 22, 2021\n\n\nKatherine Hébert, Andrew MacDonald, Jake Lawlor, Vincent Bellavance\n\n\n\n\n\n\n\n\n\n\n\n\nGeneralized Linear Models for Community Ecology\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nIn this workshop we will explore, discuss, and apply generalized linear models to combine information on species distributions, traits, phylogenies, environmental and landscape variation. We will also discuss inference under spatial and phylogenetic autocorrelation under fixed and random effects implementations. We will discuss technical elements and cover implementations using R.\n\n\n\n\n\nMay 17, 2021\n\n\nPedro Peres-Neto\n\n\n\n\n\n\n\n\n\n\n\n\nBuilding R packages\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nThis practical training will cover the basics of modern package development in R with a focus on the following three aspects: (1) how to turn your code into functions, (2) how to write tests and documentation, and (3) how to share your R package on GitHub.. \n\n\n\n\n\nMay 4, 2021\n\n\nAndrew MacDonald\n\n\n\n\n\n\n\n\n\n\n\n\nPoint-count Data Analysis\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nAnalysis of point-count data in the presence of variable survey methodologies and detection error offered by Péter Sólymos to BIOS2 Fellows in March 2021. \n\n\n\n\n\nMar 25, 2021\n\n\nPéter Sólymos\n\n\n\n\n\n\n\n\n\n\n\n\nIntroduction to EDI Concepts in a Scientific Context\n\n\n\n\n\n\nTransversal competencies\n\n\nFR\n\n\nEN\n\n\n\nA short introduction to EDI concepts in a scientific context. \n\n\n\n\n\nJan 22, 2021\n\n\nAgathe Riallan, Marie-José Naud\n\n\n\n\n\n\n\n\n\n\n\n\nSpatial Statistics in Ecology\n\n\n\n\n\n\nFR\n\n\nEN\n\n\nTechnical\n\n\n\nTraining session about statistical analysis of spatial data in ecology, hosted by Philippe Marchand (UQAT). | Session de formation sur l’analyse statistique des données spatiales en écologie, animée par Pr. Philippe Marchand (UQAT). \n\n\n\n\n\nJan 12, 2021\n\n\nPhilippe Marchand\n\n\n\n\n\n\n\n\n\n\n\n\nMaking Websites with HUGO\n\n\n\n\n\n\nTechnical\n\n\nTransversal competencies\n\n\nEN\n\n\n\nThis workshop provides a general introduction to HUGO, a popular open source framework for building websites without requiring a knowledge of HTML/CSS or web programming. \n\n\n\n\n\nDec 7, 2020\n\n\nDominique Gravel, Guillaume Larocque\n\n\n\n\n\n\n\n\n\n\n\n\nData Visualization\n\n\n\n\n\n\nTechnical\n\n\nFellow contributed\n\n\nEN\n\n\n\nGeneral principles of visualization and graphic design, and techniques of tailored visualization. This training was developed and delivered by Alex Arkilanian and Katherine Hébert on September 21st and 22nd, 2020. \n\n\n\n\n\nSep 21, 2020\n\n\nAlex Arkilanian, Katherine Hébert\n\n\n\n\n\n\n\n\n\n\n\n\nScience Communication\n\n\n\n\n\n\nCareer\n\n\nFellow contributed\n\n\nEN\n\n\n\nRecordings, content and handouts from a 6-hour Science Communication workshop held over two days on 15 and 16 June 2020. \n\n\n\n\n\nJun 15, 2020\n\n\nGracielle Higino, Katherine Hébert\n\n\n\n\n\n\n\n\n\n\n\n\nSensibilisation aux réalités autochtones et recherche collaborative\n\n\n\n\n\n\nTransversal competencies\n\n\nFR\n\n\n\nSérie de deux webinaires sur la sensibilisation aux réalités autochtones et la recherche en collaboration avec les Autochtones, offert du 28 au 30 avril 2020 par Catherine-Alexandra Gagnon, PhD. \n\n\n\n\n\nApr 28, 2020\n\n\nCatherine-Alexandra Gagnon\n\n\n\n\n\n\n\n\n\n\n\n\nMathematical Modeling in Ecology and Evolution\n\n\n\n\n\n\nTechnical\n\n\nEN\n\n\n\nThis workshop will introduce participants to the logic behind modeling in biology, focusing on developing equations, finding equilibria, analyzing stability, and running simulations.Techniques will be illustrated with the software tools, Mathematica and Maxima. This workshop was held in two parts: January 14 and January 16, 2020. \n\n\n\n\n\nJan 14, 2020\n\n\nSarah P. Otto\n\n\n\n\n\n\nNo matching items" + }, + { + "objectID": "summer-schools/v2024/slides/slides.html", + "href": "summer-schools/v2024/slides/slides.html", + "title": "Slides", + "section": "", + "text": "Below you will find the slides for the presentations made during the Summer School. 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International negotiations

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