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# SAGE tools
## SageCountFastq
~~~
Usage: SageCountFastq [options]
-l <value> | --log_level <value>
Log level
-h | --help
Print usage
-v | --version
Print version
-I <file> | --input <file>
-o <file> | --output <file>
~~~
## SageCreateLibrary
~~~
Usage: SageCreateLibrary [options]
-l <value> | --log_level <value>
Log level
-h | --help
Print usage
-v | --version
Print version
-I <file> | --input <file>
-o <file> | --output <file>
--tag <value>
--length <value>
--noTagsOutput <file>
--noAntiTagsOutput <file>
--allGenesOutput <file>
~~~
## SageCreateTagCounts
~~~
Usage: SageCreateTagCounts [options]
-l <value> | --log_level <value>
Log level
-h | --help
Print usage
-v | --version
Print version
-I <file> | --input <file>
-t <file> | --tagLib <file>
--countSense <file>
--countAllSense <file>
--countAntiSense <file>
--countAllAntiSense <file>
~~~