Data can be exported using the Export data tool (
) located in the top right of some GenVision Pro views and panels. The table below shows export options available from each view, as well as menu commands that can be used to export aligned sequences or the consensus sequence.
| To export… | Click tool in… | Available options | Notes |
|---|---|---|---|
| All of the aligned sequences | Analysis view | Export Aligned Sequences | See complete instructions below this table. Instead of using the tool, you can also use the File > Export Data > Export Aligned Sequences menu command or right-click within the Analysis view and choose Export Aligned Sequences. |
| The consensus sequence | Analysis view | Export Consensus | See complete instructions below this table. Instead of using the tool, you can also use the the File > Export Data > Export Consensus menu command or right-click within the Analysis view and choose Export Consensus. |
| Contents of the Variants view table | Variants view | NA | Save data in either comma- or tab-separated value (.csv or .tab) formats. |
| Matching regions of displayed matches, but not the query sequence itself | Table view | Export Data > Matches without Gaps | Data is saved as an ungapped FASTA (.fasta) file. |
| Displayed matches aligned against the query | Table view | Export Data > Aligned Matches | Data is saved as a gapped FASTA (.fasta) file. |
| Contents of the Table view | Table view | Export Data > Table | Data is saved in either comma- or tab-separated value (.csv or .tab) formats. |
| Contents of the Text view | Table view | Export Data > Text | Data is saved in text (.txt) format. |
| A file of selected sequence matches | Table view | Download Sequences | Data is saved in GenBank (.gbk) format. |
| A selected data source in BAM format | Explorer panel | NA | Data is saved in BAM (.bam) format. |
Exporting a consensus sequence or the aligned sequences:
When you export a consensus sequence, the following popup opens:
- Use the Experiment and Chromosome dropdown menus to choose the data source and chromosome name/number.
- Use the Start and End areas to optionally define a subrange to export.
- Press OK.
A new popup appears:
- Use the drop-down menu to choose from FASTA file, GenBank file or Lasergene DNA file formats.
- If you wish to preserve gaps in the consensus, add a checkmark next to Include gaps.
- If you wish to include bases that were only found in the reference sequence and not in any read sequences, add a checkmark next to Include reference-only bases as ‘N’.
- Press OK.
- A Save As dialog appears. Choose a name and filetype and press Save or OK.
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