Introduction
Welcome to stackPACKTM v2.1. The stackPACK clustering system allows rapid clustering,
alignment and analysis of ESTs as well as full-length sequences by providing sophisticated gene
indexing capabilities that go well beyond other clustering and assembly tools.
A web-based interface is provided with stackPACK. This interface gives access to the following programs:
WebPipeTM: Project creation and initialization of the clustering process.
WebProjectManagerTM: Project manipulation and management.
WebProbeTM: Viewing of results.
WebReportTM: Output reporting for download and evaluation.
The following stackPACK documentation is available:
Detailed User Manual, with links available from every page of the interface.
Naming conventions used in the stackPACK interface.
User Manual for command line use of stackPACK.
A brief guide to the interface, provided below.
How to use the WebPipe (more...)
- Click on WebPipe in the menubar.
- Enter the details as follows:
- Project Owner - Enter your e-mail address here to be notified when your data has been processed.
- Project Name - Enter a project name using only alphanumeric characters .
- Project Description - Enter a brief project description.
- Use the browse button to specify the location of the input data file.
- Enter the sequence data format (click here for more info on formats).
- Click on "Go Ahead" to initialize the clustering pipeline.
How to use the WebProjectManager (more).
- Click on WebProjectManager in the menubar for a list of the various projects.
- If desired, restrict the project list by typing the name of a Project Owner in the box at the top of the page.
- Click on:
- Project Name for a status report.
- Info for a full summary report.
- Delete for the deletion of a project.
How to use the WebProbe (more).
- Click on WebProbe in the menubar.
- Enter your project name, or click on "(..)" for a full list of projects.
- Query the WebProbe:
- by accession number.
- for clusters with potential alternate expression forms.
- for a summary report.
- Click on "Go Ahead" to view the sequence data.
How to use the WebReport (more).
- Click on WebReport in the menubar.
- Enter the Project Name.
- Choose the type of report you wish to generate.
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