pospos_neg.label: Label a group of cells positive or negative for a group of...
In adamnc2/simpleSCDE: Simplified Cell Data Manipulation and SCDE Testing

Description Usage Arguments Value Examples

Label a group of cells positive or negative for a group of two genes

1 2	pospos_neg.label(df, rowname.x1, rowname.x2, x1 = 100, x2 = 100, x1.limit = 0, x2.limit = 0, posname = "pos", negname = "neg")

`df`	A data frame
`rowname.x1`	The name of a gene(row) to be measured for hits in provided cells
`rowname.x2`	The name of a gene(row) to be measured for hits in provided cells
`x1`	The minimum number of hits required to label a cell positive for the expression of a particular gene (default: 100)
`x2`	The minimum number of hits required to label a cell positive for the expression of a particular gene (default: 100)
`x1.limit`	The maximum number of hits of the gene defined by `rowname.x1` that is allowed to be present in a negative cell (default: 0)
`x2.limit`	The maximum number of hits of the gene defined by `rowname.x2` that is allowed to be present in a negative cell (default: 0)
`posname`	The string to label cells that are determined to be positive (default: "pos")
`negname`	The string to label cells that are determined to be negative (default: "neg")

A named character vector that contains posname and negname, and alls cells that do not qualify as either are omitted

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pos_neg.label(df = Fincher, rowname = "dd_Smed_v4_12111_0_1", x1 = 110,
              x2 = 90, x1.limit = 10, x2.limit = 10, posname = "slit_pos",
              negname = "slit_neg")