Rampart

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

Parameters

Fastq DirDir

Run annotation of SARS-nCoV-2 sequences within the RAMPART suite

Annotated ClearOption

Remove your annotated folder if you want to do a fresh run. Annotations will be removed from the same directory as the Fastq Dir

Returns

Annotations./annotations

• Select Click Me! button to render RAMPART in the UI

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1. Ensure you’ve loaded a run that has been bookmarked from the previous tab (described above).

2. 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.

3. Select the Click Me! button to render Rampart in a new window