systemGATK: Calls the GATK executable
In HenrikBengtsson/aroma.seq: High-Throughput Sequence Analysis using the Aroma Framework
Description
Usage
Arguments
Author(s)
Examples
Description
Calls the GATK executable.
Usage
1
2
## Default S3 method:
systemGATK(..., verbose=FALSE)
Arguments
...
Arguments specifying GATK command line switches.
verbose
See Verbose.
Author(s)
Henrik Bengtsson
Examples
1
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5
## Not run:
pathnameBAM <- "bwaData/LambdaVirusExample,bwa,is/Lambda_phage/reads_1.bam"
res <- systemGATK(T="CountReads", ..., stderr=FALSE)
## End(Not run)
HenrikBengtsson/aroma.seq documentation built on Feb. 15, 2021, 2:21 a.m.
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Description Usage Arguments Author(s) Examples
Description
Calls the GATK executable.
Usage
1 2 | ## Default S3 method:
systemGATK(..., verbose=FALSE)
|
Arguments
... |
Arguments specifying GATK command line switches. |
verbose |
See |
Author(s)
Henrik Bengtsson
Examples
1 2 3 4 5 | ## Not run:
pathnameBAM <- "bwaData/LambdaVirusExample,bwa,is/Lambda_phage/reads_1.bam"
res <- systemGATK(T="CountReads", ..., stderr=FALSE)
## End(Not run)
|
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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