The PGTB has invested in a powerful computing system to control both the MinION and the P2 Solo, thereby enabling it to handle the increased throughput of PromethION flow cells.
The PGTB thus benefits from significant computing power for high-precision base calling, real-time alignment and Adaptive Sampling.
| Hi-Fi reads – HERRO (Haplotype-aware ERRor cOrrection) A recent tool, HERRO (https://github.com/lbcb-sci/herro), enables ‘self-correction’ of nanopore reads. This is the same team that had previously developed widely used tools such as Racon and Pilon. The reads corrected by HERRO are therefore of very high quality (>> Q30). This read correction applies only to reads longer than 5 kb. The primary application is therefore genome assembly. The PGTB has the necessary IT resources to provide you with these corrected reads (in Fasta format) in addition to the raw Fastq files. https://www.biorxiv.org/content/10.1101/2024.05.18.594796v1 |
Kits
LSK114 : maximum throughput, barcoding possible during ligation. For shotgun sequencing, metagenomics and amplicon sequencing
RBK114 : maximum speed, minimal DNA requirements and minimal cost. Barcoding possible via tagmentation. For shotgun sequencing and metagenomics
Direct RNA : sequencing of native mRNAs. Access to isoforms and modified bases
cDNA : stranded mRNA sequencing. Access to isoforms
Flow cells & outputs
Several factors influence the amount of data generated, regardless of the type of flow cell:
- DNA (RNA) quality/purity
- Molecule size
- Freshness of kits & flow cells
Flongle R10 : < 500 MB – Low-throughput flow cell. Ideal for low-cost testing.
MinION R10 : 3 – 10Gb
PromethION R10 : 40 – 100Gb
