question about seurat figure PC_heatmap

Question

[yueli7]

Hello,

Does anyone know what is the mean of the following figure?

I know it is heatmap, what is the meaning of four blocks?

It comes from a single-cell RNA-seq, Seurat package.

Thanks in advance for any help!

Best,

Yue

[Medhat]

Maybe you would like to give a more meanigful title?

[yueli7]

Hello, Medhat,

Already change the title.

Thank you!

Best,

Yue

Answer 1

[jared.andrews07]

It just shows the genes that compose your top principal component (i.e. explain the most amount of variability within your data), along with their principal components scores sorted by cells.

The DimHeatmap function is geared to help you define how many principal components in your data actually have significant variability to be worth including in additional analysis and dimensionality reductions like TSNE and UMAP.

[yueli7]

Hello, jared.andrews07,

Thank you so much for your response!

Thank you again!

Best,

Yue

[rohitsatyam102]

What about the colors. How do you interpret them?

[jared.andrews07]

Yellow is high, purple is low. At least by default. Color scale should always be posted with plot to make it easy to interpret.