Most workflows will include some version of the Input Sequence Files and Define Experiments or Individual Replicates screen. The upper part of the dialog consists of a drop-down menu for specifying the read technology of your sequence files. Other options in this dialog will vary depending on the workflow and the selection made in the Read technology drop-down menu.
You must choose a sequencing technology and enter one or more read files in this dialog before continuing with the wizard.
For information about performing specific tasks within this wizard screen, see the links below:
•Specifying stranded RNA-Seq reads
•Adding and removing sequence read files
•Setting up experiments for multi-sample data
•Setting up replicates and replicate sets
•Specifying experimental controls
If you will be using both Sanger and Illumina data in the assembly, see the help topic Sanger Validation Workflow.
Once you are finished making choices in this screen, click Next > to continue to the next wizard screen.