15  DS - analyse intensity of clusters - univar

15.0.1 DS Tables Columns

Diffcyt methods for differential state

15.0.2 Interactive volcano plot

Interactive volcano plot

This interactive volcano plot is designed to visualize differential state comparisons (DS) across clusters. It plots the log2(Fold Change) on the x-axis against the negative log10 of the adjusted p-value on the y-axis. The size of each dot on the plot represents the number of cells associated with each cluster*marker.

Significant differences are emphasized with red dashed lines, and the thresholds for these are determined by:

An absolute log2(Fold Change) greater than a specific cutoff (<cutoff FC>), An adjusted p-value below a certain threshold (<cutoff FDR>). Users can interact with the plot by hovering their mouse over points to overlay additional annotations.

15.0.3 violin plot

violin plot

This violin plot is designed to illustrate the scaled mfi of marker*cluster across different experimental groups, with dynamic customization options that adjust to user-defined conditions (<condition>) and batch settings (<batch>). The plot is marked by a distinctive red dashed line at the zero abscissa.

Each violin’s color corresponds to a specific condition, facilitating quick visual comparisons among groups. The shape of the data points within each violin can vary, reflecting the specified batch conditions, which helps in assessing the impact of batching on the cell abundance.

Significance annotations are embedded directly within the plot, categorizing the statistical significance of differences observed between groups based on the adjusted p-values (FDR). The levels of significance are visually encoded as follows:

  • ****: Highly significant (FDR ≤ 0.0001)
  • ***: Very significant (0.0001 < FDR ≤ 0.001)
  • **: Significant (0.001 < FDR ≤ 0.01)
  • *: Moderately significant (0.01 < FDR ≤ 0.05)
  • .: Suggestive (0.05 < FDR ≤ 0.1)

15.0.4 MFI Marker*Cluster Heatmap

MFI Marker*Cluster Heatmap