BioSeurat
This package aims at making
seurat
objects
accessible for downstream
processing using common
Bioconductor methods and classes.
In particular, the most readily equivalent Bioconductor class apt
to store the various components of a seurat
object is the
SingleCellExperiment
class
(SingleCellExperiment
package).
Indeed, the SingleCellExperiment
class contains slots to store:
any number of assays, that encompasses the @raw.data
, @data
, and
@scaled.data
slots of a seurat
object.
sample meta-data, that corresponds to the @meta.data
slot of a seurat
object.
feature meta-data, that encompasses the presence of individual genes in the
@var.genes
slot of a seurat
object
any number of reduced dimensions sets of coordinates, that are usually
stored under the @dr
slot of a seurat
object
The r Githubpkg("kevinrue/BioSeurat")
package is currently hosted
on GitHub, and may be installed as follows:
{r install, eval=FALSE}
devtools::install_github("kevinrue/BioSeurat", build_vignettes = TRUE)
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