Simian Viewer

Welcome to the Cytosplore SimianViewer tutorial! Follow the structured steps below to unlock the full potential of SimianViewer.

This tutorial requires the Cytosplore Viewer installer which can be downloaded from here.

Tutorial Sections

Find cross-species clusters via in-species cell attributes

Select species and neighborhood of interest

Select species from the

Species1(X-axis)

and the

Species2(Y-axis)

dropdowns.

Watch how to select species

Select neighborhood of interest from the

Neighborhood

dropdown.

Watch how to select neighborhood

Explore in-species cluster attributes

Explore the heatmap color patterns for the inspecies clusters.

Watch how to explore inspecies cluster attributes

Compare cluster attributes across species

Hover over the heatmap cells to compare in-species attributes across species.

Watch how to compare in-species attributes

Select key genes using cluster meta info

Select cross-species cluster of interest.

Click on the heatmap cells to select a cross-species cluster.

Watch how to select a cross-species cluster

Explore mean and differential expression of the selected cross-species cluster

Explore the mean and differential expression values by sorting them in the table view.

Watch how to explore the mean and differential expression values

Search genes of interest

Search a gene in the table view searchbox

Filter by ID

Watch how to search a gene

Explore if a gene is associated with HARs, HCONDELs, and HAQERs — human-specific regulatory regions.

Hover over the cells with checkmarks representing if a gene is associated with HARs or HCONDELs or HAQERs.

Watch how to explore HARs, HCONDELs, and HAQERs

Compare gene expression across species by cluster

Select genes and compare mean expression across species for the selected gene

Toggle the

Gene expression: all species

radio button. Select a gene from the table.

Watch how to compare mean expression

Select genes and compare differential expression for human vs other species species for the selected gene

Toggle the

Gene expression: human vs other species species

radio button. Select a gene from the table.

Watch how to compare differential expression