install.sratoolkit: Download sra toolkit

In JokingHero/ORFik: Open Reading Frames in Genomics

Download sra toolkit

Description

Currently supported for Linux (64 bit centos and ubunutu is tested to work) and Mac-OS(64 bit). If other linux distro, centos binaries will be used.

Usage

install.sratoolkit(folder = "~/bin", version = "2.11.3")

Arguments

folder	default folder, "~/bin"
version	a string, default "2.11.3"

Value

path to fastq-dump in sratoolkit

References

https://ncbi.github.io/sra-tools/fastq-dump.html

See Also

Other sra: browseSRA(), download.SRA(), download.SRA.metadata(), download.ebi(), get_bioproject_candidates(), rename.SRA.files()

Examples

# install.sratoolkit()
## Custom folder and version (not adviced)
folder <- "/I/WANT/IT/HERE/"
# install.sratoolkit(folder, version = "2.10.9")

JokingHero/ORFik documentation built on Dec. 21, 2024, 12:01 a.m.