optimus_loom_annotation() takes the file path
location of a .loom file generated by the Optimus pipeline, for
which additional data will be extracted from the appropriate
manifest. The .loom file will be imported as a LoomExperiment
object, and the additional manifest information will be added
to the object for return.
optimus_loom_annotation(loom, catalog = NULL) ## S3 method for class 'character' optimus_loom_annotation(loom, catalog = NULL) ## S3 method for class 'LoomExperiment' optimus_loom_annotation(loom, catalog = NULL)
Either a character(1) file path to a loom file on
user's system, or a loom file obtained from the HCA and
imported into R using
character() HCA catalog from which the .loom file originated.
A 'LoomExperiment' object annotated with additional
colData() derived from the manifest file
describing samples in the object.
manifest() and related functions for working with data
returned from the
*/manifest/* HCA API endpoints.
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