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Single-cell Transcriptomics Data Analysis Tutorial

Author: Xin Liu
Time: 10 min
Words: 1.8k words
Updated: 2025-11-07
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SeekSoulOnline User Guide Single-cell Transcriptomics scRNA

Getting Started

Start your analysis after logging in to SeekSoulOnline.

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Publication

Databases

Centrally store and manage your sample data and functional gene sets so you can invoke them directly during analysis.

My Data

Manage your sample datasets with support for purchasing and uploading.

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My Database

Collect curated functional gene sets for Differential Enrichment analyses.

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My Gene Sets

Collect curated gene sets for annotation and scoring analyses.

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Settings

SeekSoulOnline supports configuring parameter templates and updating personal information.

Parameter Templates

  • Customize analysis parameters
  • Customize color templates
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Profile

  • Account information
  • Change password
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Standard Analysis

SeekGene Bio provides knowledge bases and tools for single-cell experimental quality control and standardization, enabling precise management during sample preparation and quality evaluation to improve efficiency and support systematic standardization.

Basic Analysis

  • Data preprocessing and quality control
  • Dimensionality reduction and clustering analysis
  • Foundational visualization methods
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Cell Annotation

  • Methods for identifying cell types
  • Marker gene analysis
  • Annotation strategies and tips
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Charting Tools

  • Overview of multiple chart types
  • Parameter configuration and optimization
  • Chart export and sharing
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Feature Analysis

  • Gene set activity analysis
  • Cell function scoring analysis
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Differential Enrichment

  • Differential gene identification
  • Enrichment analysis
  • GSEA analysis
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Subcluster Selection

  • Filter subcluster data
  • Filter cells
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Advanced Analysis

  • Cell-cell communication analysis
  • Pseudotime analysis and more
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Interactive Analysis

  • Dimensionality reduction visualization
  • Edit labels
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Supporting Information

  • Data download (with permissions)
  • Metadata management
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Results Overview

  • Consolidated result presentation
  • Result export and sharing
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Smart Support

SeekGene Bio’s AI expert for single-cell experimental experience, cell annotation, and frequently asked questions.

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寻小因

Documentation Center

This center consolidates standardized documentation covering the full workflow from experimental preparation and sequencing to data analysis, delivering clear operational guidance and theoretical support to ensure your research progresses efficiently and smoothly.

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Datasets
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