matrixORMatrix-class {miloR} | R Documentation

## The Milo container class

### Description

The Milo container class

### Slots

`graph`

  An igraph object that represents the kNN graph

`nhoods`

  A CxN binary sparse matrix mapping cells to the neighbourhoods they belong to

`nhoodDistances`

  An list of PxN sparse matrices of Euclidean distances between vertices in each neighbourhood, one matrix per neighbourhood

`nhoodCounts`

  An NxM sparse matrix of cells counts in each neighourhood across M samples

`nhoodIndex`

  A list of the index vertices for each neighbourhood

`nhoodExpression`

  An GxN matrix of genes X neighbourhoods containing average gene expression levels across cells in each neighbourhood

`nhoodReducedDim`

  a list of reduced dimensional representations of neighbourhoods, including projections into lower dimension space

`nhoodGraph`

  an igraph object that represents the graph of neighbourhoods

`.k`

  A hidden slot that stores the value of k used for graph building

[Package miloR version 1.2.0 Index]