install.fastp {ORFik} | R Documentation

## Download and prepare fastp trimmer

### Description

On Linux, will not run "make", only use precompiled fastp file.
On Mac OS it will use precompiled binaries.
For windows must be installed through WSL (Windows Subsystem Linux)

### Usage

    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

    ## With default folder:
    #install.fastp()

    ## Or set manual folder:
    folder <- "~/I/WANT/IT/HERE/"
    #install.fastp(folder)

[Package ORFik version 1.14.7 Index]