# Save Bioconductor Objects to File

## Documentation for package ‘alabaster.base’ version 1.13.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

A C F G H I L M P Q R S T U V W misc

## -- A --

absolutizePath | Make an absolute file path
acquireFile | Acquire file or metadata
acquireFile-method | Acquire file or metadata
acquireMetadata | Acquire file or metadata
acquireMetadata-method | Acquire file or metadata
addMissingPlaceholderAttributeForHdf5 | Choose a missing value placeholder
addObjectToDedupSession | Deduplicate objects when saving
altLoadObject | Alter the reading function
altLoadObjectFunction | Alter the reading function
altReadObject | Alter the reading function
altReadObjectFunction | Alter the reading function
altSaveObject | Alter the saving generic
altSaveObjectFunction | Alter the saving generic
altStageObject | Alter the saving generic
altStageObjectFunction | Alter the saving generic
anyMissing | Find missing values
as.character.Rfc3339 | Representing Internet date/times
as.POSIXct.Rfc3339 | Representing Internet date/times
as.POSIXlt.Rfc3339 | Representing Internet date/times
as.Rfc3339 | Representing Internet date/times
as.Rfc3339.character | Representing Internet date/times
as.Rfc3339.default | Representing Internet date/times
as.Rfc3339.POSIXt | Representing Internet date/times

## -- C --

c.Rfc3339 | Representing Internet date/times
checkObjectInDedupSession | Deduplicate objects when saving
checkValidDirectory | Validate a directory of objects
chooseMissingPlaceholderForHdf5 | Choose a missing value placeholder
cloneDirectory | Clone an existing directory
cloneFile | Clone an existing file
createDedupSession | Deduplicate objects when saving
createRedirection | Create a redirection file
customloadObjectHelper | Read an object from disk

## -- F --

formatSaveEnvironment | Track the environment used for saving objects

## -- G --

getSaveEnvironment | Track the environment used for saving objects

## -- H --

h5_cast | HDF5 utilities
h5_create_vector | HDF5 utilities
h5_guess_vector_chunks | HDF5 utilities
h5_object_exists | HDF5 utilities
h5_read_attribute | HDF5 utilities
h5_read_vector | HDF5 utilities
h5_read_vls_array | VLS saving utilities
h5_use_vls | VLS saving utilities
h5_write_attribute | HDF5 utilities
h5_write_vector | HDF5 utilities
h5_write_vls_array | VLS saving utilities
hdf5 | HDF5 utilities

## -- I --

is.missing | Find missing values
is.Rfc3339 | Representing Internet date/times

## -- L --

listDirectory | List objects in a directory
listLocalObjects | List objects in a directory
listObjects | List objects in a directory
loadAtomicVector | Read an atomic vector from disk
loadBaseFactor | Read a factor from disk
loadBaseList | Read a base list from disk
loadDataFrame | Read a DataFrame from disk
loadDataFrameFactor | Read a DataFrame factor from disk
loadDirectory | Load all non-child objects in a directory
loadObject | Read an object from disk
loadSaveEnvironment | Track the environment used for saving objects

## -- M --

missingPlaceholderName | Choose a missing value placeholder
moveObject | Move a non-child object in the staging directory

## -- P --

processMcols | Save R-level metadata to disk
processMetadata | Save R-level metadata to disk

## -- Q --

quickLoadObject | Convenience helpers for handling local directories
quickReadCsv | Quickly read and write a CSV file
quickStageObject | Convenience helpers for handling local directories
quickWriteCsv | Quickly read and write a CSV file

## -- R --

readAtomicVector | Read an atomic vector from disk
readBaseFactor | Read a factor from disk
readBaseList | Read a base list from disk
readDataFrame | Read a DataFrame from disk
readDataFrameFactor | Read a DataFrame factor from disk
readLocalObject | Convenience helpers for handling local directories
readMetadata | Read R-level metadata
readObject | Read an object from disk
readObjectFile | Utilities to read and save the object file
readObjectFunctionRegistry | Read an object from disk
registerReadObjectFunction | Read an object from disk
registerSaveEnvironment | Track the environment used for saving objects
registerValidateObjectDerivedFrom | Validate an object's on-disk representation
registerValidateObjectDimensionsFunction | Validate an object's on-disk representation
registerValidateObjectFunction | Validate an object's on-disk representation
registerValidateObjectHeightFunction | Validate an object's on-disk representation
registerValidateObjectSatisfiesInterface | Validate an object's on-disk representation
removeObject | Remove a non-child object from the staging directory
restoreMetadata | Read R-level metadata
Rfc3339 | Representing Internet date/times

## -- S --

saveAtomicVector | Save atomic vectors to disk
saveBaseFactor | Save a factor to disk
saveBaseList | Save a base list to disk
saveBaseListFormat | Save a base list to disk
saveDataFrameFormat | Choose the format for certain objects
saveFormats | Choose the format for certain objects
saveLocalObject | Convenience helpers for handling local directories
saveMetadata | Save R-level metadata to disk
saveObject | Save objects to disk
saveObject-method | Representing Internet date/times
saveObject-method | Save atomic vectors to disk
saveObject-method | Save a factor to disk
saveObject-method | Save a base list to disk
saveObject-method | Stage a DataFrameFactor object
saveObject-method | Save a DataFrame to disk
saveObjectFile | Utilities to read and save the object file
schemaLocations | Read an object from disk
searchForMethods | Save objects to disk
stageObject | Save objects to disk
stageObject-method | Save atomic vectors to disk
stageObject-method | Save a factor to disk
stageObject-method | Save a base list to disk
stageObject-method | Stage a DataFrameFactor object
stageObject-method | Save objects to disk
stageObject-method | Save a DataFrame to disk

## -- T --

transformVectorForHdf5 | Transform a vector to save in a HDF5 file

## -- U --

useSaveEnvironment | Track the environment used for saving objects

## -- V --

validateDirectory | Validate a directory of objects
validateObject | Validate an object's on-disk representation
vls | VLS saving utilities

## -- W --

writeMetadata | Saving the metadata

## -- misc --

.addMissingStringPlaceholderAttribute | Choose a missing value placeholder
.altLoadObject | Alter the reading function
.altStageObject | Alter the saving generic
.chooseMissingStringPlaceholder | Choose a missing value placeholder
.createRedirection | Create a redirection file
.loadObject | Alter the reading function
.loadObjectInternal | Read an object from disk
.processMcols | Save R-level metadata to disk
.processMetadata | Save R-level metadata to disk
.quickReadCsv | Quickly read and write a CSV file
.quickWriteCsv | Quickly read and write a CSV file
.restoreMetadata | Read R-level metadata
.saveBaseListFormat | Save a base list to disk
.saveDataFrameFormat | Choose the format for certain objects
.searchForMethods | Save objects to disk
.stageObject | Alter the saving generic
.writeMetadata | Saving the metadata
[.Rfc3339 | Representing Internet date/times
[<-.Rfc3339 | Representing Internet date/times
[[.Rfc3339 | Representing Internet date/times
[[<-.Rfc3339 | Representing Internet date/times