Description Usage Arguments Details Value Examples

Combine the data from several SingleCellExperiment objects and produce some basic plots comparing them.

1 2 | ```
compareSCEs(sces, point.size = 0.1, point.alpha = 0.1, fits = TRUE,
colours = NULL)
``` |

`sces` |
named list of SingleCellExperiment objects to combine and compare. |

`point.size` |
size of points in scatter plots. |

`point.alpha` |
opacity of points in scatter plots. |

`fits` |
whether to include fits in scatter plots. |

`colours` |
vector of colours to use for each dataset. |

The returned list has three items:

`FeatureData`

Combined feature data from the provided SingleCellExperiments.

`PhenoData`

Combined pheno data from the provided SingleCellExperiments.

`Plots`

Comparison plots

`Means`

Boxplot of mean distribution.

`Variances`

Boxplot of variance distribution.

`MeanVar`

Scatter plot with fitted lines showing the mean-variance relationship.

`LibraySizes`

Boxplot of the library size distribution.

`ZerosGene`

Boxplot of the percentage of each gene that is zero.

`ZerosCell`

Boxplot of the percentage of each cell that is zero.

`MeanZeros`

Scatter plot with fitted lines showing the mean-zeros relationship.

The plots returned by this function are created using
`ggplot`

and are only a sample of the kind of plots you
might like to consider. The data used to create these plots is also returned
and should be in the correct format to allow you to create further plots
using `ggplot`

.

List containing the combined datasets and plots.

1 2 3 4 5 | ```
sim1 <- splatSimulate(nGenes = 1000, batchCells = 20)
sim2 <- simpleSimulate(nGenes = 1000, nCells = 20)
comparison <- compareSCEs(list(Splat = sim1, Simple = sim2))
names(comparison)
names(comparison$Plots)
``` |

splatter documentation built on Dec. 7, 2018, 6 p.m.

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