marker_select: decide for one gene whether it is a marker for a certain cell...
In rnabioco/clustifyR: Classifier for Single-cell RNA-seq Using Cell Clusters

marker_select

R Documentation

decide for one gene whether it is a marker for a certain cell type

Description

decide for one gene whether it is a marker for a certain cell type

Usage

marker_select(row1, cols, cut = 1, compto = 1)

Arguments

`row1`	a numeric vector of expression values (row)
`cols`	a vector of cell types (column)
`cut`	an expression minimum cutoff
`compto`	compare max expression to the value of next 1 or more

Value

vector of cluster name and ratio value

Examples

pbmc_avg <- average_clusters(
    mat = pbmc_matrix_small,
    metadata = pbmc_meta,
    cluster_col = "classified",
    if_log = FALSE
)

marker_select(
    row1 = pbmc_avg["PPBP", ],
    cols = names(pbmc_avg["PPBP", ])
)

rnabioco/clustifyR documentation built on Aug. 30, 2024, 8:16 a.m.