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Introduction to live basecalling in MinKNOW
For MinION Mk1B and Flongle (on MinION Mk1B), the MinKNOW software presents an option to basecall reads on the local computer. The basecalling is carried out live, as the read files are generated during a sequencing experiment.
Basecalling results are displayed in real-time in the MinKNOW user interface, and data is written out in the BAM or FASTQ file format.
The MinION Mk1C, GridION and PromethION devices have the capacity to perform live basecalling, while keeping up with one (MinION Mk1C), five (GridION) and up to 41 flow cells (on the PromethION 48, or 48 flow cells on PromethION 48 A100) running fast basecalling simultaneously. Basecalling is carried out directly on the device and uses the MinKNOW software. The basecalled reads are written to the device; users can then export the reads out for further analysis via the Network or removable storage.