Welcome to GenomeSet

Welcome to GenomeSet, your web-based platform for genome data analysis, comparison, and visualization. This quick-start guide will help you begin your first analysis with ease. Whether you want to upload your own data or explore public genomic resources like NCBI species or GEO datasets, this page will guide you through the essential steps.

Creating an Account (or Using Guest Features)

To fully access all GenomeSet features, including data uploading, project saving, and result sharing, you’ll need to register for a free account.

Guest users can explore public organism datasets and perform basic analyses without signing up.

  • To create an account:

    Click the Login button in the navigation bar, then choose Sign up and fill in your personal information.

  • Guest access:

    You can directly access Species Explorer or GEO Dataset Explorer from the homepage without signing up.

Uploading Your Data

  1. Log in to your account.

  2. In the navigation bar, click Start Analyzing → Upload Data.

  3. Choose your data files from your local computer.

    Supported formats:

    • FASTA (.fna, .fa, .fasta)
    • CSV / TSV (for data tables)

  4. Select the appropriate data format from the options provided.

  5. Click Upload.

After uploading, you will be redirected to your User Profile page where you can review uploaded files under the Uploaded Files section.

Exploring Species

If you wish to analyze public genomes:

  1. Go to Start Analyzing → Species Explorer.

  2. Use the Taxonomic Tree on the left to navigate through kingdoms, divisions, classes, and species.

  3. Select one or multiple species (up to 5) using checkboxes.

  4. Selected organisms will appear in a selection buffer at the top.

  5. Click Go to Analyzer to start analyzing them.

Running an Analysis

From either uploaded data or selected species:

  1. Go to the Analyzer page via Go to Analyzer button.

  2. The system will automatically download necessary genome and annotation files (for NCBI species) and parse them.

  3. Wait for parsing completion — progress indicators will guide you.

  4. Choose available sequence types (e.g., cDNA, CDS, UTRs) for analysis.

  5. Use the function panel to run calculations (Length, GC-content, CpG-islands, etc.).

Viewing and Managing Results

  • Results appear in the central results panel:

    • Charts
    • Data tables
    • Properties and filters for custom views
  • Registered users can save results, projects, or subsets for future analysis.