SCDataset: Single-cell Dataset

In TileDB-Inc/tiledbsc: TileDB Single Cell SOMA API

Single-cell Dataset

Description

Class for representing the now-deprecated SCDataset object, which has been renamed to SOMACollection.

Super classes

tiledbsc::TileDBObject -> tiledbsc::TileDBGroup -> tiledbsc::SOMACollection -> SCDataset

Active bindings

scgroups

Retrieve the SOMA (formerly SCGroup) members.

misc

An alias for uns.

Methods

Public methods

• SCDataset$new()

• SCDataset$scgroup_uris()

• SCDataset$clone()

Inherited methods

• tiledbsc::TileDBObject$class()
• tiledbsc::TileDBObject$exists()
• tiledbsc::TileDBGroup$add_member()
• tiledbsc::TileDBGroup$add_metadata()
• tiledbsc::TileDBGroup$count_members()
• tiledbsc::TileDBGroup$get_member()
• tiledbsc::TileDBGroup$get_members()
• tiledbsc::TileDBGroup$get_metadata()
• tiledbsc::TileDBGroup$group_exists()
• tiledbsc::TileDBGroup$list_member_uris()
• tiledbsc::TileDBGroup$list_members()
• tiledbsc::TileDBGroup$list_object_uris()
• tiledbsc::TileDBGroup$list_objects()
• tiledbsc::TileDBGroup$print()
• tiledbsc::TileDBGroup$remove_member()
• tiledbsc::TileDBGroup$tiledb_group()
• tiledbsc::SOMACollection$from_seurat()
• tiledbsc::SOMACollection$reset_query()
• tiledbsc::SOMACollection$set_query()
• tiledbsc::SOMACollection$soma_uris()
• tiledbsc::SOMACollection$to_seurat()

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Method new()

Create a new SCDataset object.

Usage

SCDataset$new(uri, verbose = TRUE, config = NULL, ctx = NULL)

Arguments

uri

URI of the TileDB group

verbose

Print status messages

config

optional configuration

ctx

optional tiledb context

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Method scgroup_uris()

List the SOMA (formerly SCGroup) URIs in the collection.

Usage

SCDataset$scgroup_uris()

Returns

A vector of URIs for each SOMA in the collection.

---

Method clone()

The objects of this class are cloneable with this method.

Usage

SCDataset$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

TileDB-Inc/tiledbsc documentation built on Aug. 26, 2023, 2:32 p.m.