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project:
type: website
output-dir: docs
render:
- index.qmd
- Schedule.qmd
- ExistingResources.qmd
- PackageWalkthroughs.qmd
- Homeworks.qmd
- Announcements.qmd
- course/index.qmd
- course/TakeAwayGallery.qmd
- 00_*
- 01_*
- 02_*
- 03_*
- 04_*
- 05_*
- 06_*
- 07_*
- 08_*
- 09_*
- 10_*
- 11_*
- course/community/**/*.qmd
- course/SDY3080/*.qmd
execute:
freeze: auto
website:
google-analytics: "G-LZ35J3XE4D"
announcement:
icon: info-circle
dismissable: true
content: "See Course tab for Course Materials, see YouTube tab for livestream recordings"
type: info
position: below-navbar
page-navigation: true
title: "Cytometry in R"
navbar:
logo: images/hex.svg
background: white
left:
- text: "About"
href: index.qmd
- text: "Schedule"
href: Schedule.qmd
- text: "Course"
href: course/index.qmd
- text: "Announcements"
href: Announcements.qmd
right:
- text: Existing Resources
href: ExistingResources.qmd
- text: Discussions
href: https://github.com/UMGCCCFCSR/CytometryInR/discussions
- text: Homeworks
href: Homeworks.qmd
- icon: youtube
href: https://www.youtube.com/@CytometryInR
aria-label: YouTube
- icon: github
href: https://github.com/UMGCCCFCSR/CytometryInR
aria-label: GitHub
sidebar:
style: floating
collapse-level: 1
contents:
- section: "Getting Started"
contents:
- text: "00 - GitHub"
href: course/00_GitHub/index.qmd
- text: "00 - Workstation Setup"
href: course/00_WorkstationSetup/index.qmd
- text: "00 - Positron"
href: course/00_Positron/index.qmd
- text: "00 - Git"
href: course/00_Git/index.qmd
- text: "00 - Quarto"
href: course/00_Quarto/index.qmd
- text: "00 - Getting Help"
href: course/00_Homeworks/index.qmd
- text: "00 - Floreada"
href: course/00_Floreada/index.qmd
- section: "Intro to R"
contents:
- text: "01 - Installing R Packages"
href: course/01_InstallingRPackages/index.qmd
- text: "02 - File Paths"
href: course/02_FilePaths/index.qmd
- text: "03 - Inside a .FCS file"
href: course/03_InsideFCSFile/index.qmd
- text: "04 - Intro to Tidyverse"
href: course/04_IntroToTidyverse/index.qmd
- text: "05 - Gating Sets"
href: course/05_GatingSets/index.qmd
- text: "06 - Visualizing With ggplot2"
href: course/06_Visualizing/index.qmd
- text: "07 - Applying Transformations"
href: course/07_Transformations/index.qmd
- text: "08 - Ways to Gate"
href: course/08_WaysToGate/index.qmd
- text: "09 - It's Raining Functions!"
href: course/09_Functions/index.qmd
- section: "Cytometry Core"
contents:
- text: "10 - Downsampling and Concatenation"
href: course/10_Downsampling/index.qmd
- text: "11 - Data for Statistics"
href: course/11_DataForStats/index.qmd
- section: "Beyond the Sandbox"
href: Schedule.qmd
- section: "The World is your Oyster"
href: Schedule.qmd
- section: "Bonus Content"
contents:
- text: "Concatenate - Extended Cut"
href: course/10_Downsampling/concatenate.qmd
- section: "Spectral Flow Cytometry"
contents:
- text: "Retrieving ImmPort data"
href: course/SDY3080/ImmPort.qmd
- text: "Cleanup Gates"
href: course/SDY3080/SetUp.qmd
- text: "Signature Matrices"
href: course/SDY3080/SignatureMatrices.qmd
- section: "Community"
contents:
- text: "AutoSpectral"
href: course/community/AutoSpectral/index.qmd
- text: "TRU-OLS"
href: course/community/TRU-OLS/index.qmd
page-footer:
left: Made with [Quarto](https://quarto.org/)
right: |


format:
html:
css: styles.css