Low-Rank Factorization for Subspace-clustering

ApplyCountThreshold | Remove rare and ubiquitous genes |

AvgFeatureExpression | Find average cluster feature expression |

ChordColors | Get chord colors for cells |

ClusterAvg | Create a heatmap with signaling markers over clusters |

ClusterCells | Cluster the Cells |

ClusterSig | Average cluster to cluster signaling |

ColorHue | Get a vector of n equally spaced rgb colors |

computeM | Perform ADMM |

CountClusters | Use clustering consensus to infer cluster number |

FeatureScatterPlot | Produce a scatter plot of the cells |

FindRootCell | Find the root cell |

FindRootCluster | Find the root cluster |

GetCellMetric | Get metric of pseudotime |

GetComponents | Get graph components |

GetConsensus | Produce a consensus matrix |

GetCorrelation | Get rank correlation |

GetDGFromTable | Get a weighted, directed graph from a table of edges and... |

GetDominatorTree | Get a directed graph from a predecessor vector |

GetEnsemble | Produce consensus matrix |

GetMarkerTable | Get the marker genes for each cluster |

GetPredecessors | Get the predecessor vector for a dominator tree encoded as an... |

GetSignalingPartners | Compute Cell-cell interaction probability |

ImportPathway | Process siganling pathway data |

JoinGraphComponents | Join Graph Components |

LoadData | Load sequencing data and annotations |

LogNormalize | Scale and center a data matrix |

MembershipList | Get a list of membership vectors |

NormalizeGene | Normalize signal across cells |

PlotClusterExpression | Heatmap of specific genes |

PlotLineage | Plot the pseudotime ordering of clusters |

PlotMatlabDtree | Produce a plot of matlab DTree data and return the object |

PlotTopN | Heatmap of the top n markers |

PlotTopN_Grid | Factor Grid heatmap of the top n markers |

ProcessMatlabDTree | Convert a matlab edge table and predecessor list into a... |

ReadAnnotateCountsSCE | Read Counts Data |

RepresentationMap | Generate multiple representations |

ScaleCenterData | Scale and center a data matrix |

SelectData | Set of the most variable genes |

SigPlot | Circos plot of signaling score |

SimilarityM | Compute the similarity matrix |

SimpleCap | Capitalize the first letter of a string |

ViolinPlotExpression | Violin plot of gene expression |

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