OldWhichCells: Identify cells matching certain criteria
In atakanekiz/Seurat3.0: Tools for Single Cell Genomics

Description Usage Arguments Value See Also Examples

Returns a list of cells that match a particular set of criteria such as identity class, high/low values for particular PCs, ect..

OldWhichCells(object, ...)

## S3 method for class 'Assay'
OldWhichCells(object, cells, subset.name = NULL,
  low.threshold = -Inf, high.threshold = Inf, accept.value = NULL,
  ...)

## S3 method for class 'Seurat'
OldWhichCells(object, cells = NULL,
  subset.name = NULL, low.threshold = -Inf, high.threshold = Inf,
  accept.value = NULL, ident.keep = NULL, ident.remove = NULL,
  max.cells.per.ident = Inf, random.seed = 1, assay = NULL, ...)

`object`	An object
`...`	Arguments passed to other methods and `FetchData`
`cells`	Subset of cell names
`subset.name`	Parameter to subset on. Eg, the name of a gene, PC1, a column name in object@meta.data, etc. Any argument that can be retreived using FetchData
`low.threshold`	Low cutoff for the parameter (default is -Inf)
`high.threshold`	High cutoff for the parameter (default is Inf)
`accept.value`	Returns all cells with the subset name equal to this value
`ident.keep`	Create a cell subset based on the provided identity classes
`ident.remove`	Subtract out cells from these identity classes (used for filtration)
`max.cells.per.ident`	Can be used to downsample the data to a certain max per cell ident. Default is INF.
`random.seed`	Random seed for downsampling
`assay`	Which assay to filter on