gatk: gatk
In HTSeqGenie: A NGS analysis pipeline.
Description
Usage
Arguments
Details
Value
Author(s)
Description
Run a command from the GATK
Usage
1
Arguments
gatk.jar.path
Path to the gatk jar file
method
Name of the gatk method, e.g. UnifiedGenotyper
args
additional args passed to gatk
maxheap
Maximal heap space allocated for java,
GATK recommends 4G heap for most of its apps
Details
Execute the GATK jar file using
the method specified as arg.
Stops if the command executed fails.
Value
0 for success, stops otherwise
Author(s)
Jens Reeder
HTSeqGenie documentation built on Nov. 8, 2020, 6:12 p.m.
R Package Documentation
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Description Usage Arguments Details Value Author(s)
Description
Run a command from the GATK
Usage
1 |
Arguments
gatk.jar.path |
Path to the gatk jar file |
method |
Name of the gatk method, e.g. UnifiedGenotyper |
args |
additional args passed to gatk |
maxheap |
Maximal heap space allocated for java, GATK recommends 4G heap for most of its apps |
Details
Execute the GATK jar file using the method specified as arg. Stops if the command executed fails.
Value
0 for success, stops otherwise
Author(s)
Jens Reeder
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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