Setting | Description |
|---|---|
View Assembly Results in NextGENe Viewer window | Creates a project (.pjt) file that shows how the reads aligned to the assembled results —where each read aligns and where the reads are mismatched. Select this option to view the assembly results immediately after your data analysis is complete in the NextGENe Viewer window. Note: The Ace file is the file that contains the displayed results. To ensure that this Ace file can be displayed for the project, if View Assembly Results in NextGENe Viewer window is selected, then the Save Ace File option is also selected, but is unavailable. |
Save the Original Sequences with Assembled Ones | Select this option for applications that must have original coverage information retained. If this option is selected, then an AssembledContigsWithOrg.fasta output file is created that stores both the original sequence information and the assembled sequence information, including information about which reads were used in the assembly of which contigs. See Sequence Assembly Output Files. Note: This option is not available for the De Bruijn and PE Assembly methods. If this option is selected for other assembly methods, the processing time is increased. |
Save Ace File | Creates an ACE (.ace) file that shows how the reads aligned to the assembled results—where each read aligns and where the reads are mismatched. NextGENe uses the information in this file to create the .pjt file. In addition, other programs can use this ACE file directly. |