scatter plots detail
Often a first question when performing single-cell analysis is which cells are similar to each other. This similarity can be for many reasons including similar cell type, state, or other biological and technical reasons. Many different methodological techniques can result in hard and soft clustering of cells based on underlying high-dimensional measurements. In the portal, interactive scatter plots are available to explore cell ordination. Both 2 and 3-dimensional plots are available in the portal.
Here is an example of a 2D scatter plot of cells from Brain MD70. Although a picture is shown here, the live interactive plot can be found here.
Here is an example of a 3D scatter plot of cells showing a trajectory (diffusion components) analysis derived from data from a Small Intestinal Epithelium study. Although a picture is shown here, the live interactive plot can be found here (please select "Regional Diversity of IECs (Figure 2c)(DC)" in view options found on the upper right).
