Acid Genomics Base Functions

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Documentation for package ‘AcidBase’ version 0.3.13

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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
coerceToList-method Coerce to list
compress Compress or decompress a file
decompress Compress or decompress a file
dots Extract dots from function
download Download a file from the Internet
fileDepth File depth
fileExt File extension
foldChangeToLogRatio Interconvert log ratio and fold change values
foldChangeToLogRatio-method Interconvert log ratio and fold change values
forceDetach Force detach packages
formalsList Shared list of optional default formals
genomeMetadataNames Slot names in metadata containing genome information
geometricMean Geometric mean
geometricMean-method Geometric mean
headtail Return the first and last parts of an object
headtail-method Return the first and last parts of an object
initDir Initialize directory
intersectAll Intersection of more than two vectors
intersectAll-method Intersection of more than two vectors
intersectionMatrix Intersection matrix
intersectionMatrix-method Intersection matrix
lanePattern Sequencing lane grep pattern
logRatio Interconvert log ratio and fold change values
logRatioToFoldChange Interconvert log ratio and fold change values
logRatioToFoldChange-method Interconvert log ratio and fold change values
majorVersion Major version
metadataBlacklist Sample metadata denylist
metadataDenylist Sample metadata denylist
methodDefinition Access the data inside an S4 method definition
methodFormals Access the data inside an S4 method definition
methodFunction 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
rankedMatrix-method Calculate a ranked matrix
realpath Express file paths in canonical form
requireNamespaces Require package namespaces
sanitizeVersion Sanitize version
sem Standard error of the mean
sem-method Standard error of the mean
shell Invoke a command in the system command-line shell
showHeader Header for object show method
showHeader-method Header for object show method
showSlotInfo Show slot information
standardizeCall Standardize call
updateMessage Update message