commands: Commands log parsing functions

In hbc/bcbioBase: Bcbio Base Functions

Commands log parsing functions

Description

Commands log parsing functions

Usage

getBarcodeCutoffFromCommands(log)

getLevelFromCommands(log)

getUmiTypeFromCommands(log)

Arguments

log	character. Commands log.

Value

atomic.

Functions

• getBarcodeCutoffFromCommands(): integer(1).

• getLevelFromCommands(): character(1). Return "genes" or "transcripts".

• getUmiTypeFromCommands(): character(1).

Note

Updated 2023-09-21.

Author(s)

Michael Steinbaugh, Rory Kirchner

Examples

file <- file.path(bcbioBaseTestsUrl, "surecell-commands.log")
log <- import(file)
getBarcodeCutoffFromCommands(log)
getLevelFromCommands(log)
getUmiTypeFromCommands(log)

hbc/bcbioBase documentation built on Oct. 18, 2023, 1:02 p.m.