About

MCView

Features of MCView

Manifold tab

Click on the help button for step by step explanation of interface features!

  • View gene expression manifold.
  • Color manifold by gene expression.

Genes tab

  • Two genes can be compared over the manifold.

Clicking on any metacell will select it for further examination in the Metacells tab.

Metacells tab

  • Two metacells can be specifically examined, and compared.

Choose a metacell by entering its number, or by selecting directly from the 2D-projection.

Annotate tab

  • Assign cell types and colors to metacells

# of UMIs per metacell

Max inner-fold per metacell

# of metacells with significant inner-fold

Max inner-stdev per metacell

# of cells per metacell

Max zero-fold per metacell

# of cells with zero UMIs per gene

Type Projections

Projected correlation per metacell

Fitted genes per cell type

2D Projection

Modify colors

Gene/Gene

Select axes

Gene projections

Modify colors

Markers Heatmap

  • to

Diff. Expression

2D Projection

Gene modules Heatmap

  • to

Gene/Gene

Differential expression


Gene modules





Cell types

2D Projection

Gene/Gene

Differential expression


Metacell annotation

Cell Types



Inner-Fold Heatmap

  • to

Stdev-fold Heatmap

  • to

Outliers Heatmap

  • to

Vein plot

Genes Trajectory

Metacell flow

Sample types

Order by

Sample/Sample

Select axes

Sample projections

Query 2D Projection

Diff. Expression

Type Projections

Gene Observed / Projected

Gene metadata

Atlas 2D Projection