diff --git a/docs/01-what-are-champions.md b/docs/01-what-are-champions.md index 84f1fc1..5317c60 100644 --- a/docs/01-what-are-champions.md +++ b/docs/01-what-are-champions.md @@ -2,6 +2,8 @@ An AnVIL Champion serves as a point person within a community (institution, consortium, research group, geographic region, etc.) who can be a local resource for people interested in using AnVIL. AnVIL Champions help people in their community to understand the benefits of AnVIL, get started using the platform, and find appropriate resources for learning more. They also help AnVIL better meet the needs of their community by communicating feedback to the AnVIL team. + + **An AnVIL Champion does not need to be an expert on all things AnVIL!** Primarily, they need to be able to direct people to appropriate resources for finding help, and to serve as a local knowledge store for any community-specific considerations. Examples of ways in which AnVIL Champions can help their community include: - [Helping new users get started](#onboard): Help new AnVIL users think through setting up their teams, and direct them to AnVIL's Getting Started resources @@ -29,4 +31,3 @@ Sam is an AnVIL Champion in a research consortium and works closely with an anal - Streamlined communication with support and developers - Help your community - CV / badge e.g. "Served as AnVIL Champion for Consortium X May 2024 - present" - diff --git a/docs/404.html b/docs/404.html index 2994a8e..2775912 100644 --- a/docs/404.html +++ b/docs/404.html @@ -6,7 +6,7 @@ Page not found | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/About.md b/docs/About.md index d324bfc..b0bb87b 100644 --- a/docs/About.md +++ b/docs/About.md @@ -53,12 +53,12 @@ These credits are based on our [course contributors table guidelines](https://gi ## collate en_US.UTF-8 ## ctype en_US.UTF-8 ## tz Etc/UTC -## date 2024-10-04 +## date 2024-10-31 ## pandoc 3.1.1 @ /usr/local/bin/ (via rmarkdown) ## ## ─ Packages ─────────────────────────────────────────────────────────────────── ## package * version date (UTC) lib source -## bookdown 0.39.1 2024-06-11 [1] Github (rstudio/bookdown@f244cf1) +## bookdown 0.41 2024-10-16 [1] CRAN (R 4.3.2) ## bslib 0.6.1 2023-11-28 [1] RSPM (R 4.3.0) ## cachem 1.0.8 2023-05-01 [1] RSPM (R 4.3.0) ## cli 3.6.2 2023-12-11 [1] RSPM (R 4.3.0) @@ -74,7 +74,7 @@ These credits are based on our [course contributors table guidelines](https://gi ## httpuv 1.6.14 2024-01-26 [1] RSPM (R 4.3.0) ## jquerylib 0.1.4 2021-04-26 [1] RSPM (R 4.3.0) ## jsonlite 1.8.8 2023-12-04 [1] RSPM (R 4.3.0) -## knitr 1.47.3 2024-06-11 [1] Github (yihui/knitr@e1edd34) +## knitr 1.48 2024-07-07 [1] CRAN (R 4.3.2) ## later 1.3.2 2023-12-06 [1] RSPM (R 4.3.0) ## lifecycle 1.0.4 2023-11-07 [1] RSPM (R 4.3.0) ## magrittr 2.0.3 2022-03-30 [1] RSPM (R 4.3.0) @@ -90,7 +90,7 @@ These credits are based on our [course contributors table guidelines](https://gi ## Rcpp 1.0.12 2024-01-09 [1] RSPM (R 4.3.0) ## remotes 2.4.2.1 2023-07-18 [1] RSPM (R 4.3.0) ## rlang 1.1.4 2024-06-04 [1] CRAN (R 4.3.2) -## rmarkdown 2.27.1 2024-06-11 [1] Github (rstudio/rmarkdown@e1c93a9) +## rmarkdown 2.25 2023-09-18 [1] RSPM (R 4.3.0) ## sass 0.4.8 2023-12-06 [1] RSPM (R 4.3.0) ## sessioninfo 1.2.2 2021-12-06 [1] RSPM (R 4.3.0) ## shiny 1.8.0 2023-11-17 [1] RSPM (R 4.3.0) @@ -99,7 +99,7 @@ These credits are based on our [course contributors table guidelines](https://gi ## urlchecker 1.0.1 2021-11-30 [1] RSPM (R 4.3.0) ## usethis 2.2.3 2024-02-19 [1] RSPM (R 4.3.0) ## vctrs 0.6.5 2023-12-01 [1] RSPM (R 4.3.0) -## xfun 0.44.4 2024-06-11 [1] Github (yihui/xfun@9da62cc) +## xfun 0.48 2024-10-03 [1] CRAN (R 4.3.2) ## xtable 1.8-4 2019-04-21 [1] RSPM (R 4.3.0) ## yaml 2.3.8 2023-12-11 [1] RSPM (R 4.3.0) ## diff --git a/docs/about-the-authors.html b/docs/about-the-authors.html index 885f410..5684dcd 100644 --- a/docs/about-the-authors.html +++ b/docs/about-the-authors.html @@ -6,7 +6,7 @@ About the Authors | AnVIL Champions - + @@ -22,7 +22,7 @@ - + @@ -289,12 +289,12 @@

About the Authors 2 Become an AnVIL Champion | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/communicate.html b/docs/communicate.html index c194ad7..58bb98f 100644 --- a/docs/communicate.html +++ b/docs/communicate.html @@ -6,7 +6,7 @@ 6 Communicate Feedback | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/help.html b/docs/help.html index 5d7eef1..1f648e6 100644 --- a/docs/help.html +++ b/docs/help.html @@ -6,7 +6,7 @@ 5 Get Help | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/index.html b/docs/index.html index 8661f57..2036743 100644 --- a/docs/index.html +++ b/docs/index.html @@ -6,7 +6,7 @@ AnVIL Champions - + @@ -22,7 +22,7 @@ - + @@ -148,7 +148,7 @@

About this Book

diff --git a/docs/index.md b/docs/index.md index cdcdb28..54c5992 100644 --- a/docs/index.md +++ b/docs/index.md @@ -1,6 +1,6 @@ --- title: "AnVIL Champions" -date: "October 04, 2024" +date: "October 31, 2024" site: bookdown::bookdown_site documentclass: book bibliography: book.bib diff --git a/docs/learn.html b/docs/learn.html index a7adbd9..24df9ef 100644 --- a/docs/learn.html +++ b/docs/learn.html @@ -6,7 +6,7 @@ 4 Learn More | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/onboard.html b/docs/onboard.html index 9a40fe1..2089319 100644 --- a/docs/onboard.html +++ b/docs/onboard.html @@ -6,7 +6,7 @@ 3 Onboard New Users | AnVIL Champions - + @@ -22,7 +22,7 @@ - + diff --git a/docs/search_index.json b/docs/search_index.json index c73695a..c5488cd 100644 --- a/docs/search_index.json +++ b/docs/search_index.json @@ -1 +1 @@ -[["index.html", "AnVIL Champions About this Book Inspired by AnVIL Collection", " AnVIL Champions October 04, 2024 About this Book This “booklet” is part of a series of books for the Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL) of the National Human Genome Research Institute (NHGRI). This short booklet explains what AnVIL Champions are and serves as a resource for AnVIL Champions as they support their community. Inspired by The AnVIL Champions program is inspired by programs such as: Center for Scientific Collaboration and Community Engagement (CSCCE), Cyberinfrastructure Campus Champions Program National Microbiome Data Collaborative Champions Program Nextflow Ambassadors PREreview Champions Program rOpenSci Champions Program AnVIL Collection Learn more about AnVIL by visiting https://anvilproject.org or reading the article in Cell Genomics. Please check out our full collection of AnVIL and related resources: https://hutchdatascience.org/AnVIL_Collection/ "],["what-are-anvil-champions.html", "1 What are AnVIL Champions? 1.1 What do you need to be an AnVIL Champion? 1.2 Why be an AnVIL Champion?", " 1 What are AnVIL Champions? An AnVIL Champion serves as a point person within a community (institution, consortium, research group, geographic region, etc.) who can be a local resource for people interested in using AnVIL. AnVIL Champions help people in their community to understand the benefits of AnVIL, get started using the platform, and find appropriate resources for learning more. They also help AnVIL better meet the needs of their community by communicating feedback to the AnVIL team. An AnVIL Champion does not need to be an expert on all things AnVIL! Primarily, they need to be able to direct people to appropriate resources for finding help, and to serve as a local knowledge store for any community-specific considerations. Examples of ways in which AnVIL Champions can help their community include: Helping new users get started: Help new AnVIL users think through setting up their teams, and direct them to AnVIL’s Getting Started resources Also provide advice about community-specific considerations, such as explaining an institution’s preferred billing mechanism Guiding users to resources for learning more: Help community members find and navigate to the broad collection of resources for learning more about how to use AnVIL for their specific needs Pointing users towards support channels: Help community members get answers to their specific questions by directing them towards existing channels for receiving help on AnVIL Communicating feedback: Gather feedback from your community and communicate it to the AnVIL team Also guide community members to appropriate communication channels if they wish to provide feedback directly to the AnVIL team Here is what AnVIL Champions’ interactions might look like: Sam is an AnVIL Champion in a research consortium and works closely with an analyst, Alex. Alex messages Sam on Slack to ask about running a workflow on AnVIL. Sam responds by pointing to existing AnVIL tutorials and explains the consortium’s billing preferences. Sam isn’t an expert on workflows, and directs a few specific questions to the AnVIL team through help.anvilproject.org. 1.1 What do you need to be an AnVIL Champion? Basic understanding of AnVIL Comfort with new technology Willingness to help new users 1.2 Why be an AnVIL Champion? Targeted training opportunities Streamlined communication with support and developers Help your community CV / badge e.g. “Served as AnVIL Champion for Consortium X May 2024 - present” "],["become-champion.html", "2 Become an AnVIL Champion", " 2 Become an AnVIL Champion We are glad you’re interested! If you would like to be an AnVIL Champion for your community (or would like to know more), please fill out the Google Form below (or at this link) and we will get in touch with you. Loading… "],["onboard.html", "3 Onboard New Users 3.1 Discussing Team Configuration 3.2 Directing People to Resources 3.3 Explaining Community-Specific Considerations", " 3 Onboard New Users Getting started on AnVIL can be a bit overwhelming. As an AnVIL Champion, you can help new users by: 3.1 Discussing Team Configuration There are several decisions that need to be made when setting up a new group on AnVIL. These can be challenging for new users because they are unfamiliar with the vocabulary and unclear on the implications of their decisions. As an AnVIL Champion, you can help by being familiar with the decisions faced by new users and helping people think through how to set up their team. Here are some points that people will need to consider when setting up their group(s) on AnVIL: Billing Account – What Google Billing Account will you use? Note that a Billing Account is required to store data, conduct analysis, etc. Cost Monitoring – Who will monitor spending? Will this person be able to monitor daily/weekly? Team Management – Who will oversee the onboarding and offboarding of members? Will this person track the manifest of workspaces? Data Access – Which datasets will you be generating or analyzing? Do you already have access to these datasets? Data Analysis – Which tools will you need to do your analysis? Are these already Docker-ized / WDL-ized? If these are new to you, don’t worry! The AnVIL team will train you. 3.2 Directing People to Resources The Getting Started on AnVIL book is a great resource for new users that walks them step-by-step through setting up their group. See Learn More and Get Help for additional resources. 3.3 Explaining Community-Specific Considerations Most communities will have some specific considerations that people should be aware of when working on AnVIL. As an AnVIL Champion, you can help by being the local expert on common questions and concerns for your community. These can include things like: Preferred billing mechanism: Do individual groups handle their own billing, or is there e.g. an institutional agreement with Google Cloud Platform or a third-party reseller? Cost reporting requirements: What, if any, reports need to be submitted, what information should they include, and what’s the easiest way to get that out of GCP? Is there someone who needs to be added to the Billing Account so that they can view the GCP spending reports? Data and tools: Where do people find and access the data and tools they need to carry out their research? If your community is centered around a particular type of data or field of research, then there may be some common datasets and analysis tools that will be broadly useful to members of the community. You can help your community by explaining where these are maintained, how to import them into AnVIL Workspaces, and where to look for help if they are having problems. Security: If your community regularly works with sensitive or protected data, you can help new users comply with security requirements by explaining common community practices and by connecting them with other members of the community who have dealt with similar concerns and may be able to give them guidance. You don’t need to be able to answer every question that comes your way! Sharing your experience of getting started on AnVIL and your choices for setting up your team are a valuable starting point for new users. You can be incredibly helpful by being able to answer some of the most common questions that come up within your community, and by making sure your community members are aware of any local requirements for working with AnVIL. "],["learn.html", "4 Learn More 4.1 Videos 4.2 Reading 4.3 Activities", " 4 Learn More There are many resources for people to learn more about how to use AnVIL. As an AnVIL Champion, you can help people find the resources they need for their specific project. This page lists out resources you can direct people to. 4.1 Videos AnVIL Shorts: ~2 minute videos providing quick overviews. These can provide brief introductions to specific activities (e.g. “Sequence Read Archive (SRA) data on AnVIL”), or can discuss how AnVIL can be useful for people in their various roles (e.g. “AnVIL for Lead Investigators”) AnVIL Demos: 30 min walkthroughs of common tasks on AnVIL These are recordings of our live AnVIL Demo sessions, in which a member of the AnVIL team walks through a practical demonstration of how to carry out various activities on AnVIL. Some examples include “Single Cell with Bioconductor”, “Epigenetics in AnVIL”, and “How to combine data across workspaces”. An index of our videos can be found here. You can also browse the AnVIL YouTube channel. 4.2 Reading Getting Started on AnVIL: Online book walking people through account setup and the basics of how to use AnVIL Explains how to set up Google Billing Accounts and Terra Billing Projects, create Workspaces on AnVIL, and add team members with appropriate permissions, as well as how to start up tools like RStudio and Galaxy. Cell Genomics paper: The official AnVIL paper Explains the motivation and purpose for AnVIL, describes the AnVIL ecosystem and interoperability with other platforms, and highlights how AnVIL contributes to improved genomic data sharing efforts. AnVIL Collection: Website listing additional books and videos The AnVIL team provides a growing collection of resources to help AnVIL users. The complete list is available at the AnVIL Collection website. 4.3 Activities anvilproject.org/events: Lists upcoming workshops that users can register for Includes online events, such as the monthly AnVIL Demos series, as well as in-person events such as workshop sessions held at various conferences. AnVIL Demos (self-study): Materials for some of the AnVIL Demos have been made available for self-study. These provide a hands-on walkthrough that users can access at any time, covering topics such as “Create Workflows with Galaxy”, and “Single Cell with Bioconductor”. "],["help.html", "5 Get Help", " 5 Get Help As an AnVIL Champion, your job is not to answer every question about AnVIL. You can help people find answers to their specific questions by directing them towards existing channels for receiving help on AnVIL. If people have questions, there are a few places they can go to get help: AnVIL Support Forum: The AnVIL Support forum is always available, and the AnVIL team regularly monitors the support forum and responds to questions. By posting in the support forum, other AnVIL users can also benefit from the questions and responses. AnVIL Demos: ~Monthly 30-min Zoom demonstration followed by open Q&A provides an opportunity for live interactions with members of the AnVIL team. "],["communicate.html", "6 Communicate Feedback", " 6 Communicate Feedback An important part of being an AnVIL Champion is to communicate feedback from your community to the AnVIL team. AnVIL Champions serve as our real-life quality control by helping us understand the needs and challenges of their community. As you help your community members navigate AnVIL, take note of what people find confusing or frustrating and what tools, guides, or features they feel are missing, and let us know! You can help with this by communicating with the AnVIL team yourself, as well as by directing members of your community towards communication channels where they can contact us themselves. We encourage open communication through Posting in the AnVIL Support forum Contacting one of the Working Groups "],["about-the-authors.html", "About the Authors", " About the Authors These credits are based on our course contributors table guidelines.     Credits Names Pedagogy Lead Content Instructor(s) FirstName LastName Lecturer(s) (include chapter name/link in parentheses if only for specific chapters) - make new line if more than one chapter involved Delivered the course in some way - video or audio Content Author(s) (include chapter name/link in parentheses if only for specific chapters) - make new line if more than one chapter involved If any other authors besides lead instructor Content Contributor(s) (include section name/link in parentheses) - make new line if more than one section involved Wrote less than a chapter AnVIL instructions: Katherine Cox, Ava Hoffman, Elizabeth Humphries Content Editor(s)/Reviewer(s) Checked your content Content Director(s) Helped guide the content direction Content Consultants (include chapter name/link in parentheses or word “General”) - make new line if more than one chapter involved Gave high level advice on content AnVIL instructions: Allie Cliffe Acknowledgments Gave small assistance to content but not to the level of consulting Production Content Publisher(s) Helped with publishing platform Content Publishing Reviewer(s) Reviewed overall content and aesthetics on publishing platform Technical Course Publishing Engineer(s) Helped with the code for the technical aspects related to the specific course generation Template Publishing Engineers Candace Savonen, Carrie Wright Publishing Maintenance Engineer Candace Savonen Technical Publishing Stylists Carrie Wright, Candace Savonen Package Developers (ottrpal) John Muschelli, Candace Savonen, Carrie Wright Art and Design Illustrator(s) Created graphics for the course Figure Artist(s) Created figures/plots for course Videographer(s) Filmed videos Videography Editor(s) Edited film Audiographer(s) Recorded audio Audiography Editor(s) Edited audio recordings Funding Funder(s) Institution/individual who funded course including grant number Funding Staff Staff members who help with funding   ## ─ Session info ─────────────────────────────────────────────────────────────── ## setting value ## version R version 4.3.2 (2023-10-31) ## os Ubuntu 22.04.4 LTS ## system x86_64, linux-gnu ## ui X11 ## language (EN) ## collate en_US.UTF-8 ## ctype en_US.UTF-8 ## tz Etc/UTC ## date 2024-10-04 ## pandoc 3.1.1 @ /usr/local/bin/ (via rmarkdown) ## ## ─ Packages ─────────────────────────────────────────────────────────────────── ## package * version date (UTC) lib source ## bookdown 0.39.1 2024-06-11 [1] Github (rstudio/bookdown@f244cf1) ## bslib 0.6.1 2023-11-28 [1] RSPM (R 4.3.0) ## cachem 1.0.8 2023-05-01 [1] RSPM (R 4.3.0) ## cli 3.6.2 2023-12-11 [1] RSPM (R 4.3.0) ## devtools 2.4.5 2022-10-11 [1] RSPM (R 4.3.0) ## digest 0.6.34 2024-01-11 [1] RSPM (R 4.3.0) ## ellipsis 0.3.2 2021-04-29 [1] RSPM (R 4.3.0) ## evaluate 0.23 2023-11-01 [1] RSPM (R 4.3.0) ## fastmap 1.1.1 2023-02-24 [1] RSPM (R 4.3.0) ## fs 1.6.3 2023-07-20 [1] RSPM (R 4.3.0) ## glue 1.7.0 2024-01-09 [1] RSPM (R 4.3.0) ## htmltools 0.5.7 2023-11-03 [1] RSPM (R 4.3.0) ## htmlwidgets 1.6.4 2023-12-06 [1] RSPM (R 4.3.0) ## httpuv 1.6.14 2024-01-26 [1] RSPM (R 4.3.0) ## jquerylib 0.1.4 2021-04-26 [1] RSPM (R 4.3.0) ## jsonlite 1.8.8 2023-12-04 [1] RSPM (R 4.3.0) ## knitr 1.47.3 2024-06-11 [1] Github (yihui/knitr@e1edd34) ## later 1.3.2 2023-12-06 [1] RSPM (R 4.3.0) ## lifecycle 1.0.4 2023-11-07 [1] RSPM (R 4.3.0) ## magrittr 2.0.3 2022-03-30 [1] RSPM (R 4.3.0) ## memoise 2.0.1 2021-11-26 [1] RSPM (R 4.3.0) ## mime 0.12 2021-09-28 [1] RSPM (R 4.3.0) ## miniUI 0.1.1.1 2018-05-18 [1] RSPM (R 4.3.0) ## pkgbuild 1.4.3 2023-12-10 [1] RSPM (R 4.3.0) ## pkgload 1.3.4 2024-01-16 [1] RSPM (R 4.3.0) ## profvis 0.3.8 2023-05-02 [1] RSPM (R 4.3.0) ## promises 1.2.1 2023-08-10 [1] RSPM (R 4.3.0) ## purrr 1.0.2 2023-08-10 [1] RSPM (R 4.3.0) ## R6 2.5.1 2021-08-19 [1] RSPM (R 4.3.0) ## Rcpp 1.0.12 2024-01-09 [1] RSPM (R 4.3.0) ## remotes 2.4.2.1 2023-07-18 [1] RSPM (R 4.3.0) ## rlang 1.1.4 2024-06-04 [1] CRAN (R 4.3.2) ## rmarkdown 2.27.1 2024-06-11 [1] Github (rstudio/rmarkdown@e1c93a9) ## sass 0.4.8 2023-12-06 [1] RSPM (R 4.3.0) ## sessioninfo 1.2.2 2021-12-06 [1] RSPM (R 4.3.0) ## shiny 1.8.0 2023-11-17 [1] RSPM (R 4.3.0) ## stringi 1.8.3 2023-12-11 [1] RSPM (R 4.3.0) ## stringr 1.5.1 2023-11-14 [1] RSPM (R 4.3.0) ## urlchecker 1.0.1 2021-11-30 [1] RSPM (R 4.3.0) ## usethis 2.2.3 2024-02-19 [1] RSPM (R 4.3.0) ## vctrs 0.6.5 2023-12-01 [1] RSPM (R 4.3.0) ## xfun 0.44.4 2024-06-11 [1] Github (yihui/xfun@9da62cc) ## xtable 1.8-4 2019-04-21 [1] RSPM (R 4.3.0) ## yaml 2.3.8 2023-12-11 [1] RSPM (R 4.3.0) ## ## [1] /usr/local/lib/R/site-library ## [2] /usr/local/lib/R/library ## ## ────────────────────────────────────────────────────────────────────────────── "],["404.html", "Page not found", " Page not found The page you requested cannot be found (perhaps it was moved or renamed). You may want to try searching to find the page's new location, or use the table of contents to find the page you are looking for. "]] +[["index.html", "AnVIL Champions About this Book Inspired by AnVIL Collection", " AnVIL Champions October 31, 2024 About this Book This “booklet” is part of a series of books for the Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL) of the National Human Genome Research Institute (NHGRI). This short booklet explains what AnVIL Champions are and serves as a resource for AnVIL Champions as they support their community. Inspired by The AnVIL Champions program is inspired by programs such as: Center for Scientific Collaboration and Community Engagement (CSCCE), Cyberinfrastructure Campus Champions Program National Microbiome Data Collaborative Champions Program Nextflow Ambassadors PREreview Champions Program rOpenSci Champions Program AnVIL Collection Learn more about AnVIL by visiting https://anvilproject.org or reading the article in Cell Genomics. Please check out our full collection of AnVIL and related resources: https://hutchdatascience.org/AnVIL_Collection/ "],["what-are-anvil-champions.html", "1 What are AnVIL Champions? 1.1 What do you need to be an AnVIL Champion? 1.2 Why be an AnVIL Champion?", " 1 What are AnVIL Champions? An AnVIL Champion serves as a point person within a community (institution, consortium, research group, geographic region, etc.) who can be a local resource for people interested in using AnVIL. AnVIL Champions help people in their community to understand the benefits of AnVIL, get started using the platform, and find appropriate resources for learning more. They also help AnVIL better meet the needs of their community by communicating feedback to the AnVIL team. An AnVIL Champion does not need to be an expert on all things AnVIL! Primarily, they need to be able to direct people to appropriate resources for finding help, and to serve as a local knowledge store for any community-specific considerations. Examples of ways in which AnVIL Champions can help their community include: Helping new users get started: Help new AnVIL users think through setting up their teams, and direct them to AnVIL’s Getting Started resources Also provide advice about community-specific considerations, such as explaining an institution’s preferred billing mechanism Guiding users to resources for learning more: Help community members find and navigate to the broad collection of resources for learning more about how to use AnVIL for their specific needs Pointing users towards support channels: Help community members get answers to their specific questions by directing them towards existing channels for receiving help on AnVIL Communicating feedback: Gather feedback from your community and communicate it to the AnVIL team Also guide community members to appropriate communication channels if they wish to provide feedback directly to the AnVIL team Here is what AnVIL Champions’ interactions might look like: Sam is an AnVIL Champion in a research consortium and works closely with an analyst, Alex. Alex messages Sam on Slack to ask about running a workflow on AnVIL. Sam responds by pointing to existing AnVIL tutorials and explains the consortium’s billing preferences. Sam isn’t an expert on workflows, and directs a few specific questions to the AnVIL team through help.anvilproject.org. 1.1 What do you need to be an AnVIL Champion? Basic understanding of AnVIL Comfort with new technology Willingness to help new users 1.2 Why be an AnVIL Champion? Targeted training opportunities Streamlined communication with support and developers Help your community CV / badge e.g. “Served as AnVIL Champion for Consortium X May 2024 - present” "],["become-champion.html", "2 Become an AnVIL Champion", " 2 Become an AnVIL Champion We are glad you’re interested! If you would like to be an AnVIL Champion for your community (or would like to know more), please fill out the Google Form below (or at this link) and we will get in touch with you. Loading… "],["onboard.html", "3 Onboard New Users 3.1 Discussing Team Configuration 3.2 Directing People to Resources 3.3 Explaining Community-Specific Considerations", " 3 Onboard New Users Getting started on AnVIL can be a bit overwhelming. As an AnVIL Champion, you can help new users by: 3.1 Discussing Team Configuration There are several decisions that need to be made when setting up a new group on AnVIL. These can be challenging for new users because they are unfamiliar with the vocabulary and unclear on the implications of their decisions. As an AnVIL Champion, you can help by being familiar with the decisions faced by new users and helping people think through how to set up their team. Here are some points that people will need to consider when setting up their group(s) on AnVIL: Billing Account – What Google Billing Account will you use? Note that a Billing Account is required to store data, conduct analysis, etc. Cost Monitoring – Who will monitor spending? Will this person be able to monitor daily/weekly? Team Management – Who will oversee the onboarding and offboarding of members? Will this person track the manifest of workspaces? Data Access – Which datasets will you be generating or analyzing? Do you already have access to these datasets? Data Analysis – Which tools will you need to do your analysis? Are these already Docker-ized / WDL-ized? If these are new to you, don’t worry! The AnVIL team will train you. 3.2 Directing People to Resources The Getting Started on AnVIL book is a great resource for new users that walks them step-by-step through setting up their group. See Learn More and Get Help for additional resources. 3.3 Explaining Community-Specific Considerations Most communities will have some specific considerations that people should be aware of when working on AnVIL. As an AnVIL Champion, you can help by being the local expert on common questions and concerns for your community. These can include things like: Preferred billing mechanism: Do individual groups handle their own billing, or is there e.g. an institutional agreement with Google Cloud Platform or a third-party reseller? Cost reporting requirements: What, if any, reports need to be submitted, what information should they include, and what’s the easiest way to get that out of GCP? Is there someone who needs to be added to the Billing Account so that they can view the GCP spending reports? Data and tools: Where do people find and access the data and tools they need to carry out their research? If your community is centered around a particular type of data or field of research, then there may be some common datasets and analysis tools that will be broadly useful to members of the community. You can help your community by explaining where these are maintained, how to import them into AnVIL Workspaces, and where to look for help if they are having problems. Security: If your community regularly works with sensitive or protected data, you can help new users comply with security requirements by explaining common community practices and by connecting them with other members of the community who have dealt with similar concerns and may be able to give them guidance. You don’t need to be able to answer every question that comes your way! Sharing your experience of getting started on AnVIL and your choices for setting up your team are a valuable starting point for new users. You can be incredibly helpful by being able to answer some of the most common questions that come up within your community, and by making sure your community members are aware of any local requirements for working with AnVIL. "],["learn.html", "4 Learn More 4.1 Videos 4.2 Reading 4.3 Activities", " 4 Learn More There are many resources for people to learn more about how to use AnVIL. As an AnVIL Champion, you can help people find the resources they need for their specific project. This page lists out resources you can direct people to. 4.1 Videos AnVIL Shorts: ~2 minute videos providing quick overviews. These can provide brief introductions to specific activities (e.g. “Sequence Read Archive (SRA) data on AnVIL”), or can discuss how AnVIL can be useful for people in their various roles (e.g. “AnVIL for Lead Investigators”) AnVIL Demos: 30 min walkthroughs of common tasks on AnVIL These are recordings of our live AnVIL Demo sessions, in which a member of the AnVIL team walks through a practical demonstration of how to carry out various activities on AnVIL. Some examples include “Single Cell with Bioconductor”, “Epigenetics in AnVIL”, and “How to combine data across workspaces”. An index of our videos can be found here. You can also browse the AnVIL YouTube channel. 4.2 Reading Getting Started on AnVIL: Online book walking people through account setup and the basics of how to use AnVIL Explains how to set up Google Billing Accounts and Terra Billing Projects, create Workspaces on AnVIL, and add team members with appropriate permissions, as well as how to start up tools like RStudio and Galaxy. Cell Genomics paper: The official AnVIL paper Explains the motivation and purpose for AnVIL, describes the AnVIL ecosystem and interoperability with other platforms, and highlights how AnVIL contributes to improved genomic data sharing efforts. AnVIL Collection: Website listing additional books and videos The AnVIL team provides a growing collection of resources to help AnVIL users. The complete list is available at the AnVIL Collection website. 4.3 Activities anvilproject.org/events: Lists upcoming workshops that users can register for Includes online events, such as the monthly AnVIL Demos series, as well as in-person events such as workshop sessions held at various conferences. AnVIL Demos (self-study): Materials for some of the AnVIL Demos have been made available for self-study. These provide a hands-on walkthrough that users can access at any time, covering topics such as “Create Workflows with Galaxy”, and “Single Cell with Bioconductor”. "],["help.html", "5 Get Help", " 5 Get Help As an AnVIL Champion, your job is not to answer every question about AnVIL. You can help people find answers to their specific questions by directing them towards existing channels for receiving help on AnVIL. If people have questions, there are a few places they can go to get help: AnVIL Support Forum: The AnVIL Support forum is always available, and the AnVIL team regularly monitors the support forum and responds to questions. By posting in the support forum, other AnVIL users can also benefit from the questions and responses. AnVIL Demos: ~Monthly 30-min Zoom demonstration followed by open Q&A provides an opportunity for live interactions with members of the AnVIL team. "],["communicate.html", "6 Communicate Feedback", " 6 Communicate Feedback An important part of being an AnVIL Champion is to communicate feedback from your community to the AnVIL team. AnVIL Champions serve as our real-life quality control by helping us understand the needs and challenges of their community. As you help your community members navigate AnVIL, take note of what people find confusing or frustrating and what tools, guides, or features they feel are missing, and let us know! You can help with this by communicating with the AnVIL team yourself, as well as by directing members of your community towards communication channels where they can contact us themselves. We encourage open communication through Posting in the AnVIL Support forum Contacting one of the Working Groups "],["about-the-authors.html", "About the Authors", " About the Authors These credits are based on our course contributors table guidelines.     Credits Names Pedagogy Lead Content Instructor(s) FirstName LastName Lecturer(s) (include chapter name/link in parentheses if only for specific chapters) - make new line if more than one chapter involved Delivered the course in some way - video or audio Content Author(s) (include chapter name/link in parentheses if only for specific chapters) - make new line if more than one chapter involved If any other authors besides lead instructor Content Contributor(s) (include section name/link in parentheses) - make new line if more than one section involved Wrote less than a chapter AnVIL instructions: Katherine Cox, Ava Hoffman, Elizabeth Humphries Content Editor(s)/Reviewer(s) Checked your content Content Director(s) Helped guide the content direction Content Consultants (include chapter name/link in parentheses or word “General”) - make new line if more than one chapter involved Gave high level advice on content AnVIL instructions: Allie Cliffe Acknowledgments Gave small assistance to content but not to the level of consulting Production Content Publisher(s) Helped with publishing platform Content Publishing Reviewer(s) Reviewed overall content and aesthetics on publishing platform Technical Course Publishing Engineer(s) Helped with the code for the technical aspects related to the specific course generation Template Publishing Engineers Candace Savonen, Carrie Wright Publishing Maintenance Engineer Candace Savonen Technical Publishing Stylists Carrie Wright, Candace Savonen Package Developers (ottrpal) John Muschelli, Candace Savonen, Carrie Wright Art and Design Illustrator(s) Created graphics for the course Figure Artist(s) Created figures/plots for course Videographer(s) Filmed videos Videography Editor(s) Edited film Audiographer(s) Recorded audio Audiography Editor(s) Edited audio recordings Funding Funder(s) Institution/individual who funded course including grant number Funding Staff Staff members who help with funding   ## ─ Session info ─────────────────────────────────────────────────────────────── ## setting value ## version R version 4.3.2 (2023-10-31) ## os Ubuntu 22.04.4 LTS ## system x86_64, linux-gnu ## ui X11 ## language (EN) ## collate en_US.UTF-8 ## ctype en_US.UTF-8 ## tz Etc/UTC ## date 2024-10-31 ## pandoc 3.1.1 @ /usr/local/bin/ (via rmarkdown) ## ## ─ Packages ─────────────────────────────────────────────────────────────────── ## package * version date (UTC) lib source ## bookdown 0.41 2024-10-16 [1] CRAN (R 4.3.2) ## bslib 0.6.1 2023-11-28 [1] RSPM (R 4.3.0) ## cachem 1.0.8 2023-05-01 [1] RSPM (R 4.3.0) ## cli 3.6.2 2023-12-11 [1] RSPM (R 4.3.0) ## devtools 2.4.5 2022-10-11 [1] RSPM (R 4.3.0) ## digest 0.6.34 2024-01-11 [1] RSPM (R 4.3.0) ## ellipsis 0.3.2 2021-04-29 [1] RSPM (R 4.3.0) ## evaluate 0.23 2023-11-01 [1] RSPM (R 4.3.0) ## fastmap 1.1.1 2023-02-24 [1] RSPM (R 4.3.0) ## fs 1.6.3 2023-07-20 [1] RSPM (R 4.3.0) ## glue 1.7.0 2024-01-09 [1] RSPM (R 4.3.0) ## htmltools 0.5.7 2023-11-03 [1] RSPM (R 4.3.0) ## htmlwidgets 1.6.4 2023-12-06 [1] RSPM (R 4.3.0) ## httpuv 1.6.14 2024-01-26 [1] RSPM (R 4.3.0) ## jquerylib 0.1.4 2021-04-26 [1] RSPM (R 4.3.0) ## jsonlite 1.8.8 2023-12-04 [1] RSPM (R 4.3.0) ## knitr 1.48 2024-07-07 [1] CRAN (R 4.3.2) ## later 1.3.2 2023-12-06 [1] RSPM (R 4.3.0) ## lifecycle 1.0.4 2023-11-07 [1] RSPM (R 4.3.0) ## magrittr 2.0.3 2022-03-30 [1] RSPM (R 4.3.0) ## memoise 2.0.1 2021-11-26 [1] RSPM (R 4.3.0) ## mime 0.12 2021-09-28 [1] RSPM (R 4.3.0) ## miniUI 0.1.1.1 2018-05-18 [1] RSPM (R 4.3.0) ## pkgbuild 1.4.3 2023-12-10 [1] RSPM (R 4.3.0) ## pkgload 1.3.4 2024-01-16 [1] RSPM (R 4.3.0) ## profvis 0.3.8 2023-05-02 [1] RSPM (R 4.3.0) ## promises 1.2.1 2023-08-10 [1] RSPM (R 4.3.0) ## purrr 1.0.2 2023-08-10 [1] RSPM (R 4.3.0) ## R6 2.5.1 2021-08-19 [1] RSPM (R 4.3.0) ## Rcpp 1.0.12 2024-01-09 [1] RSPM (R 4.3.0) ## remotes 2.4.2.1 2023-07-18 [1] RSPM (R 4.3.0) ## rlang 1.1.4 2024-06-04 [1] CRAN (R 4.3.2) ## rmarkdown 2.25 2023-09-18 [1] RSPM (R 4.3.0) ## sass 0.4.8 2023-12-06 [1] RSPM (R 4.3.0) ## sessioninfo 1.2.2 2021-12-06 [1] RSPM (R 4.3.0) ## shiny 1.8.0 2023-11-17 [1] RSPM (R 4.3.0) ## stringi 1.8.3 2023-12-11 [1] RSPM (R 4.3.0) ## stringr 1.5.1 2023-11-14 [1] RSPM (R 4.3.0) ## urlchecker 1.0.1 2021-11-30 [1] RSPM (R 4.3.0) ## usethis 2.2.3 2024-02-19 [1] RSPM (R 4.3.0) ## vctrs 0.6.5 2023-12-01 [1] RSPM (R 4.3.0) ## xfun 0.48 2024-10-03 [1] CRAN (R 4.3.2) ## xtable 1.8-4 2019-04-21 [1] RSPM (R 4.3.0) ## yaml 2.3.8 2023-12-11 [1] RSPM (R 4.3.0) ## ## [1] /usr/local/lib/R/site-library ## [2] /usr/local/lib/R/library ## ## ────────────────────────────────────────────────────────────────────────────── "],["404.html", "Page not found", " Page not found The page you requested cannot be found (perhaps it was moved or renamed). You may want to try searching to find the page's new location, or use the table of contents to find the page you are looking for. "]] diff --git a/docs/what-are-anvil-champions.html b/docs/what-are-anvil-champions.html index e74eeb6..1917f1e 100644 --- a/docs/what-are-anvil-champions.html +++ b/docs/what-are-anvil-champions.html @@ -6,7 +6,7 @@ 1 What are AnVIL Champions? | AnVIL Champions - + @@ -22,7 +22,7 @@ - + @@ -149,6 +149,8 @@

1 What are AnVIL Champions?

An AnVIL Champion serves as a point person within a community (institution, consortium, research group, geographic region, etc.) who can be a local resource for people interested in using AnVIL. AnVIL Champions help people in their community to understand the benefits of AnVIL, get started using the platform, and find appropriate resources for learning more. They also help AnVIL better meet the needs of their community by communicating feedback to the AnVIL team.

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An AnVIL Champion does not need to be an expert on all things AnVIL! Primarily, they need to be able to direct people to appropriate resources for finding help, and to serve as a local knowledge store for any community-specific considerations. Examples of ways in which AnVIL Champions can help their community include:

  • Helping new users get started: Help new AnVIL users think through setting up their teams, and direct them to AnVIL’s Getting Started resources