install.fastp: Download and prepare fastp trimmer
In ORFik: Open Reading Frames in Genomics
Description
Usage
Arguments
Value
References
See Also
Examples
Description
On Linux, will not run "make", only use precompiled fastp file.
On Mac OS it will use precompiled binaries.
Does not work yet for Windows!
Usage
1
install.fastp(folder = "~/bin")
Arguments
folder
path to folder for download, file will be named
"fastp", this should be most recent version. On mac it will search
for a folder called fastp-master inside folder given. Since there
is no precompiled version of fastp for Mac OS.
Value
path to runnable fastp
References
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6129281/
See Also
Other STAR:
STAR.align.folder(),
STAR.align.single(),
STAR.allsteps.multiQC(),
STAR.index(),
STAR.install(),
STAR.multiQC(),
STAR.remove.crashed.genome(),
getGenomeAndAnnotation()
Examples
1
2
3
4
5
6
## With default folder:
#install.fastp()
## Or set manual folder:
folder <- "~/I/WANT/IT/HERE/"
#install.fastp(folder)
ORFik documentation built on March 27, 2021, 6 p.m.
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Arguments Value References See Also Examples
Description
On Linux, will not run "make", only use precompiled fastp file.
On Mac OS it will use precompiled binaries.
Does not work yet for Windows!
Usage
1 | install.fastp(folder = "~/bin")
|
Arguments
folder |
path to folder for download, file will be named "fastp", this should be most recent version. On mac it will search for a folder called fastp-master inside folder given. Since there is no precompiled version of fastp for Mac OS. |
Value
path to runnable fastp
References
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6129281/
See Also
Other STAR:
STAR.align.folder(),
STAR.align.single(),
STAR.allsteps.multiQC(),
STAR.index(),
STAR.install(),
STAR.multiQC(),
STAR.remove.crashed.genome(),
getGenomeAndAnnotation()
Examples
1 2 3 4 5 6 | ## With default folder:
#install.fastp()
## Or set manual folder:
folder <- "~/I/WANT/IT/HERE/"
#install.fastp(folder)
|
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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