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nanoporetech / tombo

Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
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Convert dwell data to ms #275

Open gabbyglee opened 4 years ago

gabbyglee commented 4 years ago

Hello Marcus,

I got dwell time output data using the command text_output browser_files --file-types dwell, but I am not sure what's the meaning of these numbers. Could you let me know how to convert these values to ms?

marcus1487 commented 4 years ago

The output dwell value is the raw number of observations output by the sequencer assigned to each base. Different run modes may have different sampling rates, in particular DNA and RNA are different. In order to determine the sampling rate for a particular run, the sampling_rate attribute of the channel_info group in the FAST5 file can be checked. This attribute represents the number of raw samples taken by the sequencer per second. Conversions to different units of time would then be up to the end user.

I hope this helps. Best of luck!