Single Cell Differential Expression

bwpca | Determine principal components of a matrix using... |

clean.counts | Filter counts matrix |

clean.gos | Filter GOs list |

es.mef.small | Sample data |

knn | Sample error model |

knn.error.models | Build error models for heterogeneous cell populations, based... |

make.pagoda.app | Make the PAGODA app |

o.ifm | Sample error model |

pagoda.cluster.cells | Determine optimal cell clustering based on the genes driving... |

pagoda.effective.cells | Estimate effective number of cells based on lambda1 of random... |

pagoda.gene.clusters | Determine de-novo gene clusters and associated overdispersion... |

pagoda.pathway.wPCA | Run weighted PCA analysis on pre-annotated gene sets |

pagoda.reduce.loading.redundancy | Collapse aspects driven by the same combinations of genes |

pagoda.reduce.redundancy | Collapse aspects driven by similar patterns (i.e. separate... |

pagoda.show.pathways | View pathway or gene weighted PCA |

pagoda.subtract.aspect | Control for a particular aspect of expression heterogeneity... |

pagoda.top.aspects | Score statistical significance of gene set and cluster... |

pagoda.varnorm | Normalize gene expression variance relative to... |

pagoda.view.aspects | View PAGODA output |

papply | wrapper around different mclapply mechanisms |

pollen | Sample data |

scde | Single-cell Differential Expression (with Pathway And Gene... |

scde.browse.diffexp | View differential expression results in a browser |

scde.error.models | Fit single-cell error/regression models |

scde.expression.difference | Test for expression differences between two sets of cells |

scde.expression.magnitude | Return scaled expression magnitude estimates |

scde.expression.prior | Estimate prior distribution for gene expression magnitudes |

scde.failure.probability | Calculate drop-out probabilities given a set of counts or... |

scde.fit.models.to.reference | Fit scde models relative to provided set of expression... |

scde.posteriors | Calculate joint expression magnitude posteriors across a set... |

scde.test.gene.expression.difference | Test differential expression and plot posteriors for a... |

show.app | View PAGODA application |

view.aspects | View heatmap |

ViewPagodaApp-class | A Reference Class to represent the PAGODA application |

winsorize.matrix | Winsorize matrix |

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.