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Getting Started

  • Installation
    • From New Environment (Conda)
    • From Existing Environment (Pip)
  • Registration
    • Create a New Account
    • Account Activation
    • New Session Authentication

Documentation

  • API Overview
    • API
      • activate
      • authenticate
      • register
    • Tools
      • base
      • explain
      • select
    • Plotting
      • base_clustermap
      • embedding
      • explain_boxplot
      • explain_clustermap
      • spatial
    • Utilities
      • assign_top_celltypes
      • get_base_celltypes
      • get_prebuilt_reference
      • list_prebuilt_references
      • read_results
  • Basic Tutorials
    • Single Cell RNA-Seq
      • Loading Packages & Authenticating
      • Loading & Preprocessing Data
      • Initial Cluster Identification Using UCDBase
        • Plotting Clustermap
      • Examining Feature Attributions with UCDExplain
        • Examining Raw Predictions
        • Running UCDExplain
          • Compare Attribution Signatures for Different B Cell Subtypes
      • Generating Contextualized Predictions with UCDSelect
        • Running UCDSelect
    • Spatial Transcriptomics
      • Loading Packages & Authenticating
      • Read Lymph Node Dataset
      • Run UCDBase
      • Visualizing Results
        • Advanced Visualization
    • Bulk RNA-Seq
      • Loading Packages & Authenticating
      • Download and Pre-Process Data
      • Run UCDBase For Context-Free Prediction
        • Examine Differences in Pancreatic Beta Cell Fractions Across Disease States
      • Run UCDSelect For Contextualized Predictions
        • Running UCDSelect

About

  • Release Notes
    • 0.1.0 - 2023-04-17
      • Overview
      • Central API Server
      • User Registration / Authentication
      • Integration of UCDExplain and UCDSelect
      • Improvements to UCDBase
      • Improvements to Utilities / Plotting
      • Under the Hood Improvements
    • 0.0.1 - 2022-08-04
      • Overview
  • Method Overview
UniCell Deconvolve
  • Search

© Copyright 2023, Daniel Charytonowicz. Revision 9405cb15.