2026-HSPA-Autumn-School

Test Oxford Nanopore sequencing dataset for the 2026 HSPA Autumn School. This deposit contains a subset of fastq_pass reads from Oxford Nanopore MinION sequencing of two cell-culture-derived mpox virus samples: clade I (barcode07) and clade II (barcode08). It is provided for minimal reproducibility, pipeline testing, and hands-on tutorial use; it is not the complete sequencing run or a comprehensive research dataset. Amplicons were generated using the yale-mpox/2000/v1.0.0 primer scheme (Chen, Nicholas FG, et al. “Development of an amplicon-based sequencing approach in response to the global emergence of mpox.” PLoS Biology 21.6 (2023): e3002151). Sequencing was performed on an FLO-MIN114 flow cell using high-accuracy basecalling, with barcode trimming enabled and a minimum quality score of Q9. The reads were taxonomically classified with Kraken2 using the PlusPF database. Reads classified as human were removed using extract_kraken_reads.py; the deposited files therefore represent the non-human read subset. Only the selected fastq_pass files needed to run and evaluate the tutorial pipeline are included. Demultiplexed fail reads, complete pass-read outputs, barcode-alignment statistics, sequencing summaries, sample-sheet metadata, pore-activity and throughput metrics, run reports, and other run outputs are not part of this deposit.