Perform integration on datasets of different species with Seurat.

currently integration of three species Arabidopsis thaliana and Oryza sativa and Zea mays are supported.

Usage

crossSpecies_integrate(
  matrices,
  species,
  resolution = 0.5,
  min.cells = 3,
  min.features = 200
)

matrices: List of single-cell expression matrices of different species.
species: species of matrices. Character vector, such as c('Ath', 'Osa') or c('Ath', 'Osa', 'Zma'), whose order must match order of matrices. Each word corresponds to each matrix.
resolution: resolution parameter for FindClusters, use a value above (below) 1.0 if you want to obtain a larger (smaller) number of communities.
min.cells: Filter the expression matrices before integration. Filter genes based on the minimum number of cells.
min.features: Filter the expression matrices before integration. Filter cells based on minimum number of features.

a Seurat object