Where can I find information about the basecaller used in a specific nanopore run (we have a Gridion machine)?
I know already that we have
Guppy v. 3.0.3, which I found out by clicking on the
about tab on the MinKNOW GUI).
I was wondering, though, if additional information about the basecaller is outputted in any of the files generated when the run is finished? I checked already the
final_summary.txt and it does not contain such information. I also checked the head of the
fastq files and no further details.
My ultimate goal for the moment is to run medaka on a draft genome assembly. But for that I'd need to specify the
medaka model. From
medaka_consensus -h I see that the options available and defaults are:
-m medaka model, (default: r941_min_high_g330). Available: r941_min_fast_g303, r941_min_high_g303, r941_min_high_g330, r941_prom_fast_g303, r941_prom_high_g303, r941_prom_high_g330, r10_min_high_g303, r10_min_high_g340, r941_prom_diploid_snp, r941_min_high_g340_rle. Alternatively a .hdf file from 'medaka train'.
Therefore I already know that my option should contain
g303 (format of the models available described here). But know I'd need to find out the