This is continued from Part A: Create a templated assembly in SeqMan NGen.
If your assembly has a large number of variants, you can use ArrayStar to filter them down to a smaller group of interest before sending them to SeqMan Pro for viewing. This optional step is highly recommended for all but very small assemblies.
- Launch ArrayStar and choose Open a project.
- Navigate to and select the .astar file output by SeqMan NGen.
- When the file has loaded, click on the SNP Table tab.
- Use Filter > Filter All to perform any desired filtering.
- At the conclusion of filtering, click the Remember Results as a Variant Set tool () above the Search Results table. Type in any desired name and press OK.
- In the Action section in the center-right of the window, click the link Select and show the table of this set’s Variants.
- Use the Choose Quick-Filter drop-down to select Show Only Variant Set.
In the ensuing dialog box, select the named set and click OK.
- Click on Add/Manage Columns. Select SeqMan NGen Assembly Variants, then pdbID. Click Add Column and OK.
- In the SNP Table, click on the pdbID column header to sort the column and locate rows with PDB entries.
- Within the subset of rows with PDB entries, select any row of interest. Then right-click on it and choose Send Selection to SeqMan Pro.
- If prompted, select an individual sample of interest and press OK.
Continue to Part C: View variants in SeqMan Pro.
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