Could you list some tools which take read-reference mapping as input?

I know that minimap and such types of tools could map read to reference. But which tools are using this mapping as input?

Could you please provide a list of those prominent tools?

gene next-gen sequence

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updated 3.1 years ago by Ram

• written 9.9 years ago by manetsus •

See the variant callers listed in this paper.
Similarly search for tools that do functions listed by @Harold in the other thread you had about this.

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written 9.9 years ago by GenoMax

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