RNAlysis quick-start video guide

Launching RNAlysis

Open the graphical user interface by running rnalysis-gui in your terminal or executing gui.run_gui() in a Python console.

Importing Data

Select a file from your computer and click ‘Start’ to import it into RNAlysis.

Exploring Your Dataset

View an overview of your data, including table name, type, and dimensions. Use the ‘View full table’ button for a comprehensive look.

Applying Filters

Select a filtering function, adjust parameters, and click ‘Apply’ to modify your table. Changes won’t affect the original file until saved.

Undo the operations you applied to your data

Use the ‘Command history’ window to undo or redo operations applied to your table at any time.

Apply your operations ‘in-place’ or make a copy

Apply operations ‘in-place’ or to a copy of your table in a new tab, leaving the original unmodified.

Generating and Saving Visualizations

Create graphs of your data, resize them, and save in various file formats for further use or presentation.

Analyze Multiple Tables at the Same Time

Open new tabs to work on multiple tables simultaneously, enhancing your analytical capabilities.

Organizing Your Workspace

Sort tabs and customize their colors to efficiently manage your analytical workspace.

Saving Modified Tables

Click ‘Save table’ to store the results of your filtering operations in a location of your choice.

Creating Gene Sets

Import lists of genes as Gene Sets for specialized analysis within RNAlysis.

Visualizing Gene Set Intersections

Use the ‘Visualize Gene Sets’ window to create Venn diagrams and UpSet plots, illustrating intersections between tables and gene sets.

Performing Set Operations

Extract specific subsets from your data using predefined set operations or by selecting subsets in the preview pane.

Conducting Enrichment Analysis

Perform various types of enrichment analysis on your filtered tables and gene sets to gain biological insights.

Rapid Gene Information Lookup

Right-click to quickly access gene information from various biological databases, customizable in the settings menu.

Building Analysis Pipelines

Group multiple operations with specific parameters into a Pipeline to streamline your data analysis workflow.

Executing Pipelines

Apply Pipelines to multiple tables simultaneously, enhancing efficiency and reducing errors in your analysis.

Integrating External Bioinformatic Tools

Access a graphical interface for various bioinformatic tools, covering stages from adapter trimming to differential expression analysis.

Leveraging Table-Specific Functions

Specify table types when loading to access specialized functions, such as clustering analysis for count matrices.

Recovering Closed Tabs

Restore accidentally closed tabs through the ‘Edit’ menu to recover your work.

Generating Interactive Analysis Reports

Create comprehensive, interactive analysis reports with a single click, automatically including all generated tables, gene sets, and graphs.