Simon’s Public NAO Notebook

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…

Testing the single-read version of mgs-workflow’s PROFILE subworkflow

I’m adapting mgs-workflow to take in single-read sequencing data. Here I’m checking if: i) the output of the single-read PROFILE workflow looks as expected, and ii) if the…

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

I’m adapting mgs-workflow to take in single-read sequencing data. Here I’m checking if: (i) the output of the single-read RAW and CLEAN workflows look as expected, and (ii)…

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…