Package: cicero 1.31.0

Introduction: | Installing Cicero | Constructing cis-regulatory networks | Running Cicero | The CellDataSet class | Create a Cicero CDS | Run Cicero | Visualizing Cicero Connections | Comparing Cicero connections to other datasets | Finding Cis-Coaccessibility Networks (CCANS) | Cicero gene activity scores | Single-cell accessibility trajectories | Constructing trajectories with accessibility data | Aggregation: the primary method for addressing sparsity | aggregate_nearby_peaks | Choose sites for dimensionality reduction | Choosing sites that define progress | Choose sites by differential analysis | Choose sites by dpFeature | Reduce the dimensionality of the data and order cells | Differential Accessibility Analysis | Visualizing accessibility across pseudotime | Running differentialGeneTest with single-cell chromatin accessibility data | aggregate_by_cell_bin | References | Citation | Session Info