vanddraabe (version 1.1.1)

ClusterSummaryPlots: Cluster Summary Plots

Description

Collection of cluster summary plots.

Usage

ClusterSummaryPlots(data, passed.waters = TRUE, plot.labels = NULL)

Arguments

data

The results from the ConservedWaters() function.

passed.waters

Logical indicator to plot results for waters passing Mobility() and NormalizedBvalue() OR using all waters within the PDB files.

plot.labels

Using the same options as cowplot::plot_grid() plus NULL. The option "AUTO" labels each plot with upper-case letters (e.g., A, B, C, D, E), "auto" labels each plot with lower-case letters (e.g., a, b, c, d, e), and NULL returns plots without labels. Default is NULL.

Details

The Number of Water Cluster (see ConservationPlot()), Occupancy (see OccupancyBarplot()), Mobility (see MobilityBarplot()), B-value (see BvalueBarplot()), and Normalized B-value (see nBvalueBarplot()) plots are combined into a single plot image. The ability to label each plot with capital letters (upper-case) or lower-case letters is available.

References

Paul C Sanschagrin and Leslie A Kuhn. Cluster analysis of consensus water sites in thrombin and trypsin shows conservation between serine proteases and contributions to ligand specificity. Protein Science, 1998, 7 (10), pp 2054-2064. DOI: 10.1002/pro.5560071002 PMID: 9792092 WatCH webpage

See Also

Other plots: BoundWaterEnvPlots, BoundWaterEnvSummaryPlot, BvalueBarplot.summ, BvalueBarplot, MobNormBvalEvalPlots, MobilityBarplot.summ, MobilityBarplot, OccupancyBarplot.summ, OccupancyBarplot, nBvalueBarplot, normBvalueBarplot.summ

Examples

# NOT RUN {
  
# }
# NOT RUN {
  cluster.summary.plot <- ClusterSummaryPlots(data=thrombin10.conservedWaters,
                                             passed.waters=TRUE,
                                             labels=NULL)
  
# }
# NOT RUN {
# }