Support for simulating more recent base-callers Guppy 3.6

[cjain7]

Hi,

Thanks for providing this tool. As ONT raw accuracy is rapidly improving, I wanted to check if you're able to support base-calling using ONT's latest protocols. Currently, ONT provides raw reads with modal accuracy above 95%. See https://nanoporetech.com/accuracy

--Chirag

[liyu95]

Hi, thank you very much for your interest!
One advantage of our method is modulization. We can direct plug-in the newest basecaller into our simulator although some minor coding would be needed to do so.

Sincerely,
Yu

[cjain7]

I did try downloading and using guppy 3.6.0 and 3.7.0 base callers, but just doing that is giving me worse read accuracy compared to my earlier read set that was generated using guppy 3.1.5

I'm using the base callers in the following manner:

echo "   Basecalling with Guppy_CPU..."
$home/base_caller/$guppy/ont-guppy-cpu/bin/guppy_basecaller -r --input_path $FAST5_DIR \
	--save_path $FASTQ_DIR -c dna_r9.4.1_450bps_hac.cfg \
	--cpu_threads_per_caller $THREAD_NUM --num_callers 1

Let me know if you have any suggestion.