blit (version 0.2.0)

cellranger: Run cellranger

Description

Run cellranger

Usage

cellranger(subcmd = NULL, ..., cellranger = NULL)

Value

A command object.

Arguments

subcmd

Sub-Command of cellranger.

...

<dynamic dots> Additional arguments passed to cellranger command. Empty arguments are automatically trimmed. If a single argument, such as a file path, contains spaces, it must be quoted, for example using shQuote(). Details see: cmd_help(cellranger()).

cellranger

A string of path to cellranger command.

See Also

• cmd_wd()/cmd_envvar()/cmd_envpath()/cmd_conda()

• cmd_on_start()/cmd_on_exit()

• cmd_on_succeed()/cmd_on_fail()

• cmd_parallel()

Other commands: allele_counter(), conda(), fastq_pair(), gistic2(), kraken2(), kraken_tools(), perl(), pyscenic(), python(), samtools(), seqkit(), trust4()