spaceST: The spaceST class.

In ludvigla/spaceST: spaceST

Description

An S4 class object used to filter and store spatial transcriptomics data from multiple tissue sections

Slots

expr

Object of class dcGMatrix containing gene expression values.

norm.data

Object of class dcGMatrix containing normalized expression values.

lda.results

Object of class topics obtained using the compute.lda function from cellTree.

tsne

Matrix object representation of t-SNE results.

snn

Matrix object representation of the SNN graph.

coordinates

Data.frame representation of section ID and array coordinates.

filter.settings

List of filtering settings.

meta.data

List of meta data.

version

package version.

ludvigla/spaceST documentation built on May 29, 2019, 3:43 a.m.