Review FilterDuplicates plugin results
After the sequencing run completes, review the FilterDuplicates plugin results, and download the BAM files with duplicate reads removed.
- In the Data tab, click Completed Runs & Reports.
- In the list of runs, find the run of interest, then click the link in the Report Name column.
- In the left navigation menu, click FilterDuplicates to view the plugin summary.
-
In the FilterDuplicates section, click FilterDuplicates.html to open the BAM Files with Duplicate Reads Removed report in the browser.
BAM files load quickly, and you may see these files first in the list of links. The other file formats take longer to download, so you may have to wait for the links to the VCF, XLS, and FASTQ formats to appear.
The plugin output contains links to the BAM files that have duplicate reads that are removed. This table also shows the percentage of reads that were removed and the percentage of all reads that reached the adapter.
-
To download the filtered BAM Files, click the link for each file listed that you want to download.
The BAM files are downloaded to the directory that you use to download files from the browser. This location depends on your browser settings.
