dot-hisat2Bin: Call the HISAT2 binary with additional arguments.

In Rhisat2: R Wrapper for HISAT2 Aligner

Description

Adapted from the Rbowtie package

Usage

.hisat2Bin(bin = c("hisat2", "hisat2-build"), args = "", execute = TRUE)

Arguments

bin	The name of the binary, either hisat2 or hisat2-build.
args	A character string containing the arguments that will be passed to the binary.
execute	Logical scalar, whether to execute the command. If FALSE, return a string with the shell command.

Value

If execute is TRUE, returns the console output of running the hisat2 command. If execute is FALSE, returns the shell command.

Rhisat2 documentation built on Nov. 8, 2020, 5:49 p.m.