convert_to_integer: Turn a matrix of expression values into integer counts
In tallulandrews/TreeOfCells: Inferring the Tree of Cells

Reformats a provided expression matrix to be compatible with NBumi modelling.

1	convert_to_integer(mat)

mat

a numeric matrix of expression values (ideally raw UMI counts or raw read counts), columns = samples, rows = genes.

Coerces the provided data to a matrix then rounds all values up (ceiling) to integers and removes all rows where all values are zero.

Rounded, integer matrix of the original data.

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mat <- matrix(rgamma(1000, shape=10, scale=20), ncol=10)
mat_int <- convert_to_integer(mat)
is.integer(mat_int)

tallulandrews/TreeOfCells documentation built on April 26, 2020, 2:43 p.m.

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