SeqScape Software Version 2.1 User Guide - InfoNet

Declaring Variants into an RDG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-29
About NT Variants . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-29
Creating New NT Variants . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-30
Importing NT Variants in Tab-Delimited Format . . . . . . . . . . . . . 4-32
Creating an RDG from Aligned Consensus Sequences . . . . . . . . . . . 4-34
About Creating an RDG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-34
Importing NT Variants from an Aligned FASTA File . . . . . . . . . . . 4-34
Entering New AA Variants . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-36
Importing AA Variants . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-38
Assigning Styles to Variants . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-39
Saving a Copy of the RDG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-41
Saving the RDG for Other Projects . . . . . . . . . . . . . . . . . . . . . . . 4-41
Save To Manager As Button . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-42
Chapter 5
Creating a Project Template
Workflow for This Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-2
Creating a Project Template . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-3
About Creating a New Project Template . . . . . . . . . . . . . . . . . . . . 5-3
Creating a New Project Template . . . . . . . . . . . . . . . . . . . . . . . . . 5-4
Saving Project Components . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-5
About Saving Template Components . . . . . . . . . . . . . . . . . . . . . . 5-5
Saving Template Components from Within a Project . . . . . . . . . . 5-5
Examples of Changing the Settings Within a Project . . . . . . . . . . 5-6
Chapter 6
Creating and Analyzing a Project
Workflow for This Chapter . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
Before You Begin Creating a Project . . . . . . . . . . . . . . . . . . . . . . . 6-3
What an Analysis Entails . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-3
Ways to Create and Analyze a New Project . . . . . . . . . . . . . . . . . . . . . 6-4
Using the New Project Wizard to Create and Analyze a Project . . . . . 6-5
The New Project Wizard . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-5
Creating and Analyzing a New Project Using a Project Template . . . 6-10
About the Project Template . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-10
Creating a New Project Using a Template . . . . . . . . . . . . . . . . . . 6-10
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ABI PRISM SeqScape Software v2.1 User Guide
DRAFT
August 28, 2003 3:10 pm, SeqScapeUGTOC.fm