Rampart is an annotation tool provided by the Artic Network that gives quick, but less accurate reports for each of your demuxed samples. It is ideal for a quick look into what the annotations for each of your barcodes are but should not be fully relied on, instead opt for the pipeline that was just discussed.
Note
This module contains a UI to be displayed from the rendering button in the variables table
- Fastq Dir : Dir
- Run annotation of SARS-nCoV-2 sequences within the RAMPART suite
- Annotated Clear : Option
- Remove your annotated folder if you want to do a fresh run. Annotations will be removed from the same directory as the
Fastq Dir
- Annotations : ./annotations
- Select
Click Me!
button to render RAMPART in the UI
- Select
- Ensure you've loaded a run that has been bookmarked from the previous tab (described above).
- Select one of the included primer-schemes from the drop-down list. For this example, the data is ncov-related so we will choose
Default Genome fasta for SARS-nCoV-2
. - Select the
Click Me!
button to render Rampart in a new window