write_loom {anndata}R Documentation

Write .loom-formatted hdf5 file.

Description

Write .loom-formatted hdf5 file.

Usage

write_loom(anndata, filename, write_obsm_varm = FALSE)

Arguments

anndata

An AnnData() object

filename

The filename.

write_obsm_varm

Whether or not to also write the varm and obsm.

Examples

## Not run: 
ad <- AnnData(
  X = matrix(c(0, 1, 2, 3), nrow = 2, byrow = TRUE),
  obs = data.frame(group = c("a", "b"), row.names = c("s1", "s2")),
  var = data.frame(type = c(1L, 2L), row.names = c("var1", "var2")),
  varm = list(
    ones = matrix(rep(1L, 10), nrow = 2),
    rand = matrix(rnorm(6), nrow = 2),
    zeros = matrix(rep(0L, 10), nrow = 2)
  ),
  uns = list(a = 1, b = 2, c = list(c.a = 3, c.b = 4))
)

write_loom(ad, "output.loom")

file.remove("output.loom")

## End(Not run)

[Package anndata version 0.7.5.3 Index]