Simon’s Public NAO Notebook

ONT swab sequencing statistics

Swab sampling

Sequencing

When creating cost estimates for surveillance programs, we frequently need to provide parameters for metrics such as the number of base pairs produced in one sequencing run…

Testing the ONT version of mgs-workflow’s RAW and CLEAN subworkflows

After spending some time adapting mgs-workflow to take in single-read sequencing data (see here and here), I’m now working to adapt the pipeline to take in long-read Oxford…

Quality control of Zephyr 5b

Here is a quick analysis of the results of the Zephyr 5b run from November 13, 2024. I find very high polyA contamination, a large number of very short low-quality reads…

Identifying promising MBTA stations for swab sampling: MBTA Ridership

How many passengers use different MBTA stations?

MBTA

Swab sampling

As part of our swab sampling pilot project, we want to identify stations where we can collect a lot of swab samples in a short amount of time. One way to identify these…