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Basecalling models

This folder stores modification-unaware basecalling models needed to run nanoRMS2 for:

  • DNA: *pcr*
  • RNA: *ivt*

Those models can be used directly with guppy_basecaller using -c parameter. For example, in order to basecall using ivt_hac RNA model, just execute (we're assuming the guppy binaries are in ~/src/ont-guppy_3.6.1/bin):

# copy (or link) model files into guppy data directory
rsync -av ~/src/nanoRMS2/data ~/src/ont-guppy_3.6.1

# and execute guppy with ivt_hac model
~/src/ont-guppy_3.6.1/bin/guppy_basecaller -c rna_r9.4.1_70bps_ivt_hac.cfg -i fast5_input -s output_dir --fast5_out --compress_fastq -x cuda:0

You can find more information about the training procedure in the documentation.