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Astrolabe Diagnostics Tutorials

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El-ad David Amir edited this page Nov 7, 2022 · 4 revisions

Introduction

Introduction to Astrolabe
Administrator Tools

Experiment Setup

File Upload, Sample Features, and Channels
Experiment Settings
Using Templates to Set Up Your Experiment
Conditional Analysis using NA Values
Debarcoding Module

Walkthroughs

Immunophenotyping Navigator
Experiment Exports

Cell Subset Navigator

Introduction
Navigating the MDS Map
Subset Tools in the MDS Map
Frequency Heat Map
Differential Abundance Analysis

Differential Expression Analysis

Experiment Setup
Results
"Reports" Export

Toggle table of contents Pages 33

Home
Astrolabe Diagnostics FAQ
Astrolabe Diagnostics Tutorials
FAQ: Can I import sample features from an Excel spreadsheet?
FAQ: Do you ever subsample sample data?
FAQ: Do you have any suggestions on managing and promoting Astrolabe at a core facility?
FAQ: For "Scale by Subset", how are the scaled values calculated?
FAQ: How can I add users and provide them with access to an experiment?
FAQ: How can I assess the staining quality in my experiment?
FAQ: How can I cite Astrolabe in my abstract, grant application, paper, etc.?
FAQ: How can I import the gated FCS files into FlowJo®?
FAQ: How can I reset my password or get a new password?
FAQ: How can I visualize the biaxial plots for Astrolabe's cell subset labeling?
FAQ: How do you handle batch effects?
FAQ: How do you know which channels to use for labeling?
FAQ: How does Astrolabe use the quality control metrics?
FAQ: I am giving a department seminar, conference presentation, or another talk, how can I present Astrolabe?
FAQ: I would like to update my experiment setup. How can I change it and re analyze?
FAQ: In the gated FCS files export, are the files gated based on "Assignment" or "Profiling"?
FAQ: Should I customize the "Assignment" level labeling hierarchy?
FAQ: What are "Root_unassigned" and "CM _unassigned"?
FAQ: What are Missing Subsets?
FAQ: What are the different "Cell Subset Levels"? (Assignment, Compartment, and Profiling?)
FAQ: What is Oxidation Ratio?
FAQ: What is Signal Stability?
FAQ: What is the Astrolabe reportables (analytes) export?
FAQ: What is the minimum number of cells in a cluster?
FAQ: What is under the "Labeling Strategies" tab in the "Quality Control" section of the app?
FAQ: When should I use each one of the cell subset levels?
FAQ: Which distance metric do you use for the hierarchical clustering?
FAQ: Which statistical test do you use for the differential abundance analysis?
FAQ: Why are some metrics shaded in pink?
FAQ: Why is my Bead Count so low?

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