Add SV for Single end ONT reads about bamsurgeon HOT 3 OPEN

Hi, If you're wanting to make mutations in a long-read genome (ONT) you could try addindel.py with the options --aligner minimap --alignopts x:map-ont --single --force and see how you go. Define the deletion you want to make as you would for an indel rather than as an SV e.g. chr5 70936274 70945251 1.0 DEL.

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Thank you. Will try this.

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Hello,

When I try with the option minimap, I get the following error -
ValueError: ERROR unsupported aligner: minimap
I use v1.3. Please let me know if I should pull for the latest code.

Thanks,
Saranya

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