Keep only reads that contains a tag with value that agrees with parameters

Category Read Filters

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Overview

Keep only reads that contain a tag with a value that agrees with parameters as specified.

ReadTagValueFilter specific arguments

This table summarizes the command-line arguments that are specific to this tool. For more details on each argument, see the list further down below the table or click on an argument name to jump directly to that entry in the list.

Argument name(s)	Default value	Summary
Required Arguments
--read-filter-tag		Look for this tag in read
Optional Tool Arguments
--read-filter-tag-comp	0.0	Compare value in tag to this value
--read-filter-tag-op	EQUAL	Compare value in tag to value with this operator. If T is the value in the tag, OP is the operation provided, and V is the value in read-filter-tag, then the read will pass the filter iff T OP V is true.

Argument details

Arguments in this list are specific to this tool. Keep in mind that other arguments are available that are shared with other tools (e.g. command-line GATK arguments); see Inherited arguments above.

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--read-filter-tag

Look for this tag in read

R String  null

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--read-filter-tag-comp

Compare value in tag to this value

Float  0.0  [ [ -∞  ∞ ] ]

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--read-filter-tag-op

Compare value in tag to value with this operator. If T is the value in the tag, OP is the operation provided, and V is the value in read-filter-tag, then the read will pass the filter iff T OP V is true.

The --read-filter-tag-op argument is an enumerated type (Operator), which can have one of the following values:

LESS

LESS_OR_EQUAL

GREATER

GREATER_OR_EQUAL

EQUAL

NOT_EQUAL

Operator  EQUAL

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GATK version 4.3.0.0 built at Wed, 12 Oct 2022 21:04:44 -0400.