All functions

appendToBody()

Append values to function body

barcodePattern

Single-sell barcode pattern

basenameSansExt()

Base name without the file extension

classContains()

Get the class contained in a specificed class definition

coerceToList()

Coerce to list

compress() decompress()

Compress or decompress a file

dots()

Extract dots from function

download()

Download a file from the Internet

fileDepth()

File depth

fileExt()

File extension

forceDetach()

Force detach packages

formalsList

Shared list of optional default formals

genomeMetadataNames

Slot names in metadata containing genome information

geometricMean()

Geometric mean

headtail()

Return the first and last parts of an object

initDir()

Initialize directory

intersectAll()

Intersection of more than two vectors

intersectionMatrix()

Intersection matrix

lanePattern

Sequencing lane grep pattern

foldChangeToLogRatio() logRatioToFoldChange()

Interconvert log ratio and fold change values

majorVersion()

Major version

metadataDenylist

Sample metadata denylist

methodFunction() methodFormals()

Access the data inside an S4 method definition

metricsCols

Quality control metric columns

minorVersion()

Minor version

params

Shared parameter documentation

pasteURL()

Concatenate strings to form a URL

printString()

Print string

rankedMatrix()

Calculate a ranked matrix

realpath()

Express file paths in canonical form

requireNamespaces()

Require package namespaces

sanitizeVersion()

Sanitize version

sem()

Standard error of the mean

shell()

Invoke a command in the system command-line shell

showHeader()

Header for object show method

showSlotInfo()

Show slot information

standardizeCall()

Standardize call

updateMessage

Update message