Analyses

Analyses#

SHISO is capable of conducting multiple modes of analysis on spatial transcriptomics data.

SHISO options#

Function

Description

Hierarchical clustering: cl

Leiden clustering with neighborhood gene or isoform PCA embedding.

Spatial pattern discovery: sd

Discover spatially non-random isoforms; find isoforms that are differentially expressed across 2 user-specified tissue regions.

Interaction analysis: nb

Detect isoform co-interactions and isoform interactions with different cell-types.