Package 'tenXplore'

Title: ontological exploration of scRNA-seq of 1.3 million mouse neurons from 10x genomics
Description: Perform ontological exploration of scRNA-seq of 1.3 million mouse neurons from 10x genomics.
Authors: Vince Carey
Maintainer: VJ Carey <[email protected]>
License: Artistic-2.0
Version: 1.29.0
Built: 2024-11-18 04:42:06 UTC
Source: https://github.com/bioc/tenXplore

Help Index

cellTypes: data.frame with ids and terms

Description

cellTypes: data.frame with ids and terms

Usage

CellTypes

Format

TermSet instance

Source

efo.owl, August 2017, subclasses of http://www.ebi.ac.uk/efo/EFO_0000324

Examples

data(CellTypes)
head(slot(CellTypes, "cleanFrame"))

add/retrieve HSDS-based SE to/from cache

Description

add/retrieve HSDS-based SE to/from cache

Usage

se1.3M(cache = BiocFileCache::BiocFileCache())

Arguments

cache

BiocFileCache-like cache

tenx500: serialized full SummarizedExperiment for demonstration

Description

tenx500: serialized full SummarizedExperiment for demonstration

Usage

tenx500

Format

SummarizedExperiment instance

Source

restfulSE se1.3M pared down to 500 samples, assay materialized and assigned

Examples

data(tenx500)
tenx500

basic shiny interface to 10x data with ontological setup for cell selection

Description

basic shiny interface to 10x data with ontological setup for cell selection

Usage

tenXplore()

Value

shiny app invocation

Note

Starts slowly as it sets up connection to HDF Server.

Examples

tenXplore