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Overview of nanopore data analysis
For a full overview of nanopore data analysis, which includes options for basecalling and post-basecalling analysis, please refer to the Data Analysis document.
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How to start sequencing
The sequencing device control and data acquisition are carried out by the MinKNOW software. It is assumed you have already installed MinKNOW on your computer. Further instructions for setting up your sequencing run can be found in the MinKNOW protocol.
Basecalling will be carried out post-sequencing in the Downstream analysis section of the protocol.
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Open the MinKNOW software using the desktop shortcut and log into the MinKNOW software using your Community credentials.
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Select your connected device.
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Sequencing set-up
Select Start sequencing.
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Select positions
Enter your Experiment name and sample ID as prompted.
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Kit selection
The kit selection tab will provide a dropdown of available kits. Check the SQK-LSK114 kit.
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Run options
The run options tab provides variables for run time and starting voltage. Leave these at the default values.
Under Adaptive sampling, check Enrich or deplete sequences.
In the expanded menu, upload reference FASTA file and the .bed file.
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Basecalling
In the analysis tab check Basecalling OFF.
Note: Data basecalling will be carried out post-sequencing in the Downstream analysis section of the protocol.
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Output
Select where you would like to save the data.
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Review
Review your sequencing set-up and click Start.