Description Usage Arguments Details Value

View source: R/Microclusters.R

Merges similar transcriptional profiles into representative 'pools'

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`exprData` |
the expression data matrix |

`cellsPerPartition` |
control over the target number of cells to put into each supercell |

`filterInput` |
name of filtering method ('threshold' or 'fano') or list of genes to use when computing projections. |

`filterThreshold` |
Threshold to apply when using the 'threshold' or 'fano' projection genes filter. If greater than 1, this specifies the number of cells in which a gene must be detected for it to be used when computing PCA. If less than 1, this instead specifies the proportion of cells needed |

`filterNumMad` |
Number of median absolute deviations to use when selecting highly-variable genes in each mean-sorted bin of genes |

`latentSpace` |
(Optional) Latent space to be used instead of PCA numeric matrix cells x components |

`K` |
Number of neighbors to use for finding pools. |

A latent space is computed for the expression data via PCA after
filtering on genes (using parameters `filterInput`

and `filterThreshold`

).

Alternately, a latent space can be supplied via the `latentSpace`

argument

Euclidean distance within the latent space is then used to create cell pools

pooled cells - named list of vectors - cells in each supercell

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