filterset: Function for filtering expression data
In FateID: Quantification of Fate Bias in Multipotent Progenitors

filterset

R Documentation

Function for filtering expression data

This function discards lowly expressed genes from the expression data frame.

filterset(x, n = NULL, minexpr = 2, minnumber = 1)

`x`	expression data frame with genes as rows and cells as columns. Gene IDs should be given as row names and cell IDs should be given as column names.
`n`	ordered vector of cell IDs to be included. Cell IDs need to be column names of `x`. If not provided, then all cell IDs are included in arbitray order. Default value is `NULL`.
`minexpr`	positive real number. This is the minimum expression required for at least `minnumber` cells. All genes that do not fulfill this criterion are removed. The default value is 2.
`minnumber`	positive integer number. This is the minimum number of cells in which a gene needs to be expressed at least at a level of `minexpr`. All genes that do not fulfill this criterion are removed. The default value is 1.