2  How to Start

This step-by-step guide will help users get started with the application, including navigation through the interface.

Note

In the initial version of analycyte, there are no user accounts or login features. These features may be developed in future updates.

2.0.1 Dashboard Page

The main application page is located under the Dashboard tab.

  • Select a folder button: Users can select the base of an analycyte-projects session by choosing Select folder.

    • If a project folder exists, it will be opened.

    • If there is no existing project folder, the user will be prompted to fill out a form about the project.

No information is mandatory.

Users can choose a project description and the name of a sub-folder. If no ‘folder name’ is specified, the project folder will increment with a name like ‘p000X’.

  • Toolbox Navigation: Users can navigate through the application using the toolbox.

2.0.2 The Application left panel

Once an analycyte-projects session is launched:

left panel
Choose a Project Folder of reference for the analysis.
Cell Set <hash> folder with cell set containing the .rdsobject of cells.
Feature Set <hash> folder with feature set containing the .rdsobject of features.
Dashboard Main interface area.
Dataset Tab Displays the current dataset infos.
Export Project Allows retrieval of the specified folder through ‘Choose a Project’.
Expert View A dropdown menu that includes various advanced options:
User Actions Logs user actions with options to annotate(tbd) or delete steps. Deleting a step with dependencies will automatically delete those dependencies.
Project List Lists all projects on the same machine, with options to annotate or delete projects. Deleting a project will erase the folder and its subfolders.
Users Info Contains tables for authors and affiliations (tbd).
Available Modules Lists all actions available to the user.
Session Information Tab Displays the current version of the tool and the global variables in use.
Closing Session Sessions can be closed using the Close Session button.
Deleting Session A session and all its contained project folders can be deleted by clicking Delete Session; a confirmation message will be displayed.